Title of Invention

"A GENE EXPRESSION MODULATION SYSTEM COMPRISING A GENE EXPRESSION CASSETTE"

Abstract This invention relates to the field of biotechnology or genetic engineering. Specifically, this invention relates to the field of gene expression. More specifically, this invention relates novel substitution mutant receptors and their use in a nuclear receptor-based inducible gene expression system and methods of modulating the expression of a gene in a host cell for applications such as gene therapy, large scale production of proteins and antibodies, cell-based high throughput screening assays, functional genomics and regulation of traits In transgenic organisms.
Full Text MUTANT RECEPTORS AND THEIR USE IN A NUCLEAR RECEPTOR-BASED INDUCIBLE GENE EXPRESSION SYSTEM
This application claims priority to U.S. provisional Application No. 60/567,294 filed April 30, 2004 and U.S. provisional Application No. 60/609,424 filed September 13, 2004.
FIELD OF THE INVENTION
This invention relates to the field of biotechnology or genetic engineering. Specifically, this invention relates to the field of gene expression. More specifically, this invention relates to novel nuclear receptors comprising a substitution mutation and their use in a nuclear receptor-based induciblc gene expression system and methods of modulating the expression of a gene within a host cell using this inducible gene expression system.
BACKGROUND OF THE INVENTION
Various publications are cited herein, the disclosures of which are incorporated by reference in their entireties. However, the citation of any reference herein should not be construed as an admission that such reference is available as "Prior Art" to instant application.
In the tiled of genetic engineering, precise control of gene expression is a valuable tool for studying, manipulating, and controlling development and other physiological processes. Gene expression is a complex biological process involving a number of specific protein-protein interactions. In order for gene expression to be triggered, such that it produces the RNA necessary as the first step in protein synthesis, a transcriptional activator must be brought into proximity of promoter that controls gene transcription. Typically, the transcriptional activator itself is associated with a protein that has at least one DNA binding domain that binds to DNA binding sites present in the promoter regions of genes. Thus, for gene expression to occur, a protein comprising a DNA binding domain and a transactivation domain located at an appropriate distance from the DNA binding domain must be brought into the correct position in the promoter region of the gene.
The traditional transgcnic approach utilizes a cell-type specific promoter to drive the expression of a designed transgcnc. A DNA construct containing the transgene is first incorporated into a host genome. When triggered by a transcriptional activator, expression of the transgene occurs in a given cell type.
Another means to regulate expression of foreign genes in cells is through inducible promoters. l.xamples of the use of such inducible promoters include the PRl-a promoter, prokaryotic repressor-opcrator systems, immunosuppressive-immunophilin systems, and higher eukaryotic transcription activation systems such as ecdysteroid hormone receptor systems and are described
below.
The PRl-a promoter from tobacco is induced during the systemic acquired resistance response following pathogen attack. The use of PRl-a may be limited because it often responds to endogenous materials and external factors such as pathogens, UV-B radiation, and pollutants. Gene regulation systems based on promoters induced by heat shock, interferon and heavy metals have been described (Wurn el al., 1986, Proc. Natl. Acad. Sci. USA 83:5414-5418; Arnheiter et al., 1990, Cell 62:51-61; Filmus et al., 1992, Nucleic Acids Research 20:27550-27560). However, these systems have limitations due to their effect on expression of non-target genes. These systems are also leaky.
Prokaryotic reprcssor-operator systems utilize bacterial represser proteins and the unique operator DNA sequences to which they bind. Both the tetracycline ("Tet") and lactose ("Lac") repressor-opcrator systems from the bacterium Escherichia coli have been used in plants and animals to control gene expression. In the Tet system, tetracycline binds to the TetR represser protein, resulting in a eonformational change that releases the represser protein form the operator which as a result allows transcription to occur. In the Lac system, a lac operon is activated in response to the presence of lactose, or synthetic analogs such as isopropyl-b-D-thiogalactoside. Unfortunately, the use of such systems is restricted by unstable chemistry of the ligands, i.e. tetracycline and lactose, their toxicity, their natural presence, or the relatively high levels required for induction or repression. For similar reasons, utility of such systems in animals is limited.

Immunosuppressive molecules such as FK506, rapamycin and cyclosporine A can bind to immunophilins FKBP12, cyclophilin, etc. Using this information, a general strategy has been devised to bring together any two proteins simply be placing FK.506 on each of the two proteins or by placing FK506 on one and cyclosporine A on another one. A synthetic homodimer of FK506 (FK.1012) or a compound resulted from fusion of FK506-cyclosporine (FKCsA) can then be used to induce dimcri/ation of these molecules (Spencer et al., 1993, Science 262:1019-24; Belshaw et al., 1996 I'roc Natl Acad Sci USA 93:4604-7). Gal4 DNA binding domain fused to FKBP12 and VP16 activator domain fused to cyclophilin, and FKCsA compound were used to show heterodimerization and activation of a reporter gene under the control of a promoter containing Gal4 binding sites. Unfortunately, this system includes immunosuppressants that can have unwanted side effects and therefore, limits its use for various mammalian gene switch applications.
Higher eukaryotic transcription activation systems such as steroid hormone receptor systems have also employed. Steroid hormone receptors are members of the nuclear receptor superfamily and are found in vertebrate and invertebrate cells. Unfortunately, use of steroidal compounds that activate the receptors for the regulation of gene expression, particularly in plants and mammals, is limited clue to their involvement in many other natural biological pathways in such organisms. In order to overcome such difficulties, an alternative system has been developed using insect ecdysone receptors (EcR).
Growth, molting, and development in insects are regulated by the ecdysone steroid hormone (molting hormone) and the juvenile hormones (Dhadialla, et al,, 1998, Annu. Rev. Entomol. 43:545-569). The molecular target for ecdysone in insects consists of at least ecdysone receptor (EcR) and ultraspiraclc protein (USP). EcR is a member of the nuclear steroid receptor super family that is characterized by signature DNA and ligand binding domains, and an activation domain (Koelle et al. 1991, Cell, 67:59-77). EcR receptors are responsive to a number of ecdysteroidal compounds such as ponasterone A and muristerone A. Recently, non-steroidal compounds with ecdysteroid agonist activity have been described, including the commercially available insecticides tcbufeno/idc and mcthoxyfenozide that are marketed world wide by Rohm and Haas company (see International Patent Application No. PCT/EP96/00686 and US Patent 5,530,028). Both analogs have exceptional safety profiles to other organisms.
The insect ecdysone receptor (EcR) heterodimerizes with Ultraspiracle (USP), the insect homologue of the mammalian RXR, and binds ecdysteroids and ecdysone receptor response elements and activate transcription of ecdysone responsive genes (Riddiford et al., 2000). The EcR/USP/ligand complexes play important roles during insect development and reproduction. The EcR is a member of [he steroid honnonc receptor superfamily and has five modular domains, A/B (transactivation), C (DNA binding, hertrodimeri/ation)), D (Hinge, heterodimerization), E (ligand binding, hetcrodimeri/ation and transactivation and F (transactivation) domains. Some of these domains such as A/B, C and E retain their function when they are fused to other proteins.
Tightly regulated indueible gene expression systems or "gene switches" are useful for various applications such as gene therapy, large scale production of proteins in cells, cell based high throughput screening assays, functional genomics and regulation of traits in transgenic plants and
animals.
The first version ofEcR-based gene switch used Drosophila melanogaster EcR (DmEcR) and Mus musculus RXR (MmRXR) and showed that these receptors in the presence of ecdysteroid, ponastcroneA, transactiveate reporter genes in mammalian cell lines and transgenic mice (Christopherson et al., 1992; No et al., 1996). Later, Suhr et al., 1998 showed that non-ecdysteroidal ecdysone agonist, tebufenozide, induced high level of transactivation of reporter genes in mammalian cells through Bombyx mori EcR (BmEcR) in the absence of exogenous heterodimer partner.
International Patent Applications No. PCT/US97/05330 (WO 97/38117) and PCT/US99/08381 (WO 99/58155) disclose methods for modulating the expression of an exogenous gene in which a DNA construct comprising the exogenous gene and an ecdysone response element is activated by a second DNA construct comprising an ecdysone receptor that, in the presence of a ligand therefore, and optionally in the presence of a receptor capable of acting as a silent partner, binds to the

e
ccdysonc response element to nduce gene expression. The ecdysone receptor of choice was isolate from Drosophila mclanogaster. Typically, such systems require the presence of the silent partner, preferably rctinoid X receptor (RXR), in order to provide optimum activation. In mammalian cells, insect ccdysonc receptor (EcR) hctcrodimerizes with retinoid X receptor (RXR) and regulates xpression of target genes in a ligand dependent manner. International Patent Application No. KT/US98/14215 (WO 99/02683) discloses that the ecdysone receptor isolated from the silk moth Bombyx mori is functional in mammalian systems without the need for an exogenous dimer partner.
U.S. Patent No. 6,265,173 Bl discloses that various members of the steroid/thyroid superfamily of receptors can combine with Drosophila melanogaster ultraspiracle receptor (USP) or fragments thereof comprising at least the dimerization domain of USP for use in a gene expression system. U.S. Patent No. 5,880,333 discloses a Drosophila melanogaster EcR and ultraspiracle (USP) hetcrodimcr system used in plants in which the transactivation domain and the DNA binding domain arc positioned on two different hybrid proteins. Unfortunately, these USP-based systems are constitutive in animal cells and therefore, are not effective for regulating reporter gene expression.
In each of these cases, the transactivation domain and the DNA binding domain (either as native HcR as in International Patent Application No. PCT/US98/14215 or as modified EcR as in International Patent Application No. PCT/US97/05330) were incorporated into a single molecule and the other heterodimeric partners, either USP or RXR, were used in their native state.
Drawbacks of the above described EcR-based gene regulation systems include a considerable background activity in the absence of ligands and non-applicability of these systems for use in both plants and animals (see U.S. Patent No. 5,880,333). Therefore, a need exists in the art for improved HcK-based systems to precisely modulate the expression of exogenous genes in both plants and animals. Such improved systems would be useful for applications such as gene therapy, large-scale production of proteins and antibodies, cell-based high throughput screening assays, functional genomics and regulation of traits in transgenic animals. For certain applications such as gene therapy, it may be desirable to have an inducible gene expression system that responds well to synthetic non-ccdystcroid ligands and at the same is insensitive to the natural ecdysteroids. Thus, improved systems that are simple, compact, and dependent on ligands that are relatively inexpensive, readily available and of low toxicity to the host would prove useful for regulating biological systems.
Previously, Applicants have shown that an ecdysone receptor-based inducible gene expression system in which the transactivation and DNA binding domains are separated from each other by placing them on two different proteins results in greatly reduced background activity in the absence of a ligand and significantly increased activity over background in the presence of a ligand (pending application PCT/US01/09050, incorporated herein in its entirety by reference). This two-hybrid system is a significantly improved inducible gene expression modulation system compared to the two systems disclosed in applications PCT/US97/05330 and PCT/US98/14215. The two-hybrid system exploits the ability of a pair of interacting proteins to bring the transcription activation domain into a more favorable position relative to the DNA binding domain such that when the DNA binding domain binds to the DNA binding site on the gene, the transactivation domain more effectively activates the promoter (see, for example, U.S. Patent No. 5,283,173). Briefly, the two-hybrid gene expression system comprises two gene expression cassettes; the first encoding a DNA binding domain fused to a nuclear receptor polypeptide, and the second encoding a transactivation domain fused to a different nuclear receptor polypeptide. In the presence of ligand, the interaction of the first polypeptide with the second polypeptide effectively tethers the DNA binding domain to the transactivation domain. Since the DNA binding and transactivation domains reside on two different molecules, the background activity in the absence of ligand is greatly reduced.
A two-hybrid system also provides improved sensitivity to non-ecdysteroidal ligands for example, diacylhydra/ines, when compared to ccdysteroidal ligands for example, ponasterone A ("PonA") or imiristeronc A ("MurA"), That is, when compared to ecdysteroids, the non-ecdysteroidal ligands provide higher activity at a lower concentration. In addition, since transactivation based on EcR gene switches is often cell-line dependent, it is easier to tailor switching systems to obtain maximum transactivation capability for each application. Furthermore, the two-hybrid system avoids some side effects due to overexpression of RXR that often occur when unmodified RXR is used as a switching partner. In a preferred two-hybrid system, native DNA binding and

transactivation domain of EcR or RXR are eliminated and as a result, these hybrid molecules have less chance of interacting with other steroid hormone receptors present in the cell resulting in
reduced side effects.
1'hc HcR is a member of the nuclear receptor superfamily and classified into subfamily 1, group H (referred to herein as "Group H nuclear receptors"). The members of each group share 40-60% amino acid identity in the E (ligand binding) domain (Laudet et al., A Unified Nomenclature System for the Nuclear Receptor Subfamily, 1999; Cell 97:161-163). In addition to the ecdysone receptor, other members of this nuclear receptor subfamily 1, group H include: ubiquitous receptor (UR), Orphan receptor 1 (OR-1), steroid hormone nuclear receptor 1 (NER-1), RXR interacting protein-15 (RIP-15). liver x receptor p (LXRf3), steroid hormone receptor like protein (RLD-1), liver x receptor (LXR), liver x receptor a (LXRa), farnesoid x receptor (FXR), receptor interacting protein 14 (RIP-14), and farncsol receptor (HRR-1).
To develop an improved Group H nuclear receptor-based inducible gene expression system in which ligand binding or ligand specificity is modified, Applicants created substitution mutant EcRs that comprise substituted amino acid residues in the ligand binding domain(LBD). A homology modeling and docking approach was used to predict critical residues that mediate binding of ecdysteroids and non-ecdysteroids to the EcR LBD. These substitution mutant EcRs were evaluated in ligand binding and transactivation assays. As presented herein, Applicants' novel substitution mutant nuclear receptors and their use in a nuclear receptor-based inducible gene expression system provides an improved inducible gene expression system in both prokaryotic and eukaryotic host cells in which ligand sensitivity and magnitude of transactivation may be selected as desired, depending upon the application.
DETAILED DESCRIPTION OF THE INVENTION
Applicants describe herein the construction of Group H nuclear receptors that comprise substitution mutations (referred to herein as "substitution mutants") at amino acid residues that are involved in ligand binding to a Group H nuclear receptor ligand binding domain that affect the ligand sensitivity and magnitude of induction of the Group H nuclear receptor and the demonstration that these substitution mutant nuclear receptors are useful in methods of modulating gene expression.
Specifically, Applicants have developed a novel nuclear receptor-based inducible gene expression system comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation. Applicants have shown that the effect of such a substitution mutation may increase or reduce ligand binding activity or ligand sensitivity and the ligand may be ecdysteroid or non-ccdysteroid specific. Thus, Applicants' invention provides a Group H nuclear receptor-based inducible gene expression system useful for modulating expression of a gene of interest in a host cell, in a particularly desirable embodiment, Applicants' invention provides an ecdysone receptor-based inducible gene expression system that responds solely to either ecdysteroid ligands or non-ccdysteroidal ligands. In addition, the present invention also provides an improved non-cedysteroidal ligand responsive ecdysone receptor-based inducible gene expression system. Thus, Applicants' novel inducible gene expression system and its use in methods of modulating gene expression in a host cell overcome the limitations of currently available inducible expression systems and provide the skilled artisan with an effective means to control gene expression.
The present invention is useful for applications such as gene therapy, large scale production of proteins and antibodies, cell-based high throughput screening assays, orthogonal ligand screening assays, functional gcnomics, proteomics, metabolomics, and regulation of traits in transgenic organisms, where functional genomics, proteomics, metabolomics, and regulation of traits in transgenic organisms, where control of gene expression levels is desirable. An advantage of Applicants' invention is that it provides a means to regulate gene expression and to tailor expression level to suit the user's requirements.
DEFIMTIONS
In this disclosure, a number of terms and abbreviations are used. The following definitions arc provided and should be helpful in understanding the scope and practice of the present invention.

In a specific embodiment, the term "about" or "approximately" means within 20%, preferably within 10% more preferably within 5%, and even more preferably within 1% of a given value or
range.
The term "substantially free" means that a composition comprising "A" (wherein "A" is a single protein, DNA molecule, vector, rccombinant host cell, etc.) is substantially free of "B" (Where "B" comprises one or more contaminating proteins, DNA molecules, vectors, etc.) when at least about 75% by weight of the proteins, DNA, vectors (depending on the category of species to which A and B belong) in the composition is "A". Preferably, "A" comprises at least about 90% by weight of the A • B species in the composition, most preferably at least about 99% by weight. It is also preferred that a composition, which is substantially free of contamination, contain only a single molecular weight species having the activity or characteristic of the species of interest.
The terms "isolated" for the purposes of the present invention designates a biological material (nucleic acid or protein) that has been removed from its original environment (the environment in which it is naturally present). For example, a polynucleotide present in the natural state in a plant or an animal is not isolated, however the same polynucleotide separated from the adjacent nucleic acids in which it is naturally present, is considered "isolated". The term "purified" does not require the material to be present in a form exhibiting absolute purity, exclusive of the presence of other compounds. It is rather a relative definition.
A polynucleotide is in the "purified" state after purification of the starting materials or of the natural material by at least one order of magnitude, preferably 2 or 3 and preferably 4 or 5 orders of
magnitude.
A "nucleic acid" is a polymeric compound comprised of covalently linked subunits called nuclcotidcs. Nucleic acid includes polyribonucleic acid (RNA) and polydeoxyribonucleic acid (DNA), both or which may be single-stranded or double-stranded. DNA includes but is not limited to cDNA. genomic DNA, plasmids DNA, synthetic DNA, and semi-synthetic DNA. DNA may be
linear, circular, or supercoiled.
A "nucleic acid molecule" refers to the phosphate ester polymeric form of ribonueleosides (adenosine, guanosine, uridine or cytidine; "RNA molecules") or deoxyribonucleosides (dcoxyadenosinc, dcoxyguanosine, deoxythymidine, or deoxycytidine; "DNA molecules"), or any phosphoester analogs thereof, such as phosphorothioates and thioesters, in either single stranded form, or a double-stranded helix, Double stranded DNA-DNA, DNA-RNA and RNA-RNA helices arc possible. The term nucleic acid molecule, and in particular DNA or RNA molecule, refers only to the primary and secondary structure of the molecule, and does not limit it to any particular tertiary forms. Thus, this term includes double-stranded DNA found, inter alia, in linear or circular DNA molecules (i.e. restriction fragments), plasmids, and chromosomes. In discussing the structure of particular double-stranded DNA molecules, sequences may be described herein according to the normal convention of giving only the sequence in the 5' to 3' direction along the non-transcribed strand of DNA (i.e., the strand having a sequence homologous to the mRNA). A "recombinant DNA molecule" is a DNA molecule that has undergone a molecular biological manipulation.
The term "fragment" will be understood to mean a nucleotide sequence of reduced length relative to the reference nucleic acid and comprising, over the common portion, a nucleotide sequence identical to the reference nucleic acid. Such a nucleic acid fragment according to the invention may be where appropriate, included in a larger polynucleotide of which it is a constituent. Such framnents comprise, or alternatively consist of, oligonucleotides ranging in length from at least 6, 8, 9, U). 12. 15, 18.20, 21,22,23,24,25,30,39,40,42,45,48,50,51,54,57,60,63,66,70, 75, 78, 80, 90. 100, 105, 120, 135, 150, 200, 300, 500, 720, 900, 1000, or 1500 consecutive nucleotides of a nucleic acid according to the invention.
As used herein, an "isolated nucleic acid fragment" is a polymer of RNA or DNA that is single- or double-stranded, optionally containing synthetic, non-natural or altered nucleotide bases. An isolated nucleic acid fragment in the form of a polymer of DNA may be comprised of one or more segments of cDNA, genomic DNA or synthetic DNA.

"gene" refers to an assembly of nucleotides that encode a polypeptide, and includes cDNA and nomic DNA nucleic acids. "Gene" also refers to a nucleic acid fragment that expresses a specific otcin or polypeptide, including regulatory sequences preceding (5' non-coding sequences) and llowing (3' non-coding sequences) the coding sequence. "Native gene" refers to a gene as found nature with its own regulatory sequences. "Chimeric gene" refers to any gene that is not a native nc, comprising regulatory and/or coding sequences that are not found together in nature. :cordingly, a chimcric gene may comprise regulatory sequences and coding sequences that are rived from different sources, or regulatory sequences and coding sequences derived from the me source, but arranged in a manner different than that found in nature. A chimeric gene may mprisc coding sequences derived from different sources and/or regulatory sequences derived im different sources. "Endogenous gene" refers to a native gene in its natural location in the nonic of an organism. A "foreign" gene or "heterologous" gene refers to a gene not normally und in the host organism, but that is introduced into the host organism by gene transfer. Foreign ncs can comprise native genes inserted into a non-native organism, or chimeric genes. A •ansgene" is a gene that has been introduced into the genome by a transformation procedure.
Icterologous" DNA refers to DNA not naturally located in the cell, or in a chromosomal site of „• cell. Preferably, the heterologous DNA includes a gene foreign to the cell.
ic term "genome" includes chromosomal as well as mitochondrial, chloroplast and viral DNA or
\A.
nucleic acid molecule is "hybridizablc" to another nucleic acid molecule, such as a cDNA, nomic DNA, or RNA, when a single stranded form of the nucleic acid molecule can anneal to the icr nucleic acid molecule under the appropriate conditions of temperature and solution ionic •ength (sec Sambrook et al., 1989 infra). Hybridization and washing conditions are well known cl exempli lied in Samtarook, J., Fritsch, E. F. and Maniatis, T. Molecular Cloning: A Laboratory anual, Second Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor (1989), rticularly Chapter 11 and Table 11.1 therein (entirely incorporated herein by reference). The millions of temperature and ionic strength determine the "stringency" of the hybridization.
ringency conditions can be adjusted to screen for moderately similar fragments, such as mologous sequences from distantly related organisms, to highly similar fragments, such as genes it duplicate functional enzymes from closely related organisms. For preliminary screening for mologous nucleic acids, low stringency hybridization conditions, corresponding to a Tm of 55°, n be used, e.g., 5x SSC, 0.1% SDS, 0.25% milk, and no formamide; or 30% formamide, 5x SSC, 5% SDS). Moderate stringency hybridization conditions correspond to a higher Tm, e.g., 50% rmamide, 5x or 6x SCC. High stringency hybridization conditions correspond to the highest Tm, >. 50% formamide, 5x or 6x SCC.
/bridi/ation requires that the two nucleic acids contain complementary sequences, although pending on the stringency of the hybridization, mismatches between bases are possible. The term omplementary" is used to describe the relationship between nucleotide bases that are capable of bridi/ing to one another. For example, with respect to DNA, adenosine is complementary to /mine and cytosine is complementary to guanine. Accordingly, the instant invention also includes ilated nucleic acid fragments that are complementary to the complete sequences as disclosed or ed herein as well as those substantially similar nucleic acid sequences.
a specific embodiment of the invention, polynucleotides are detected by employing hybridization nditions comprising a hybridization step at Tm of 55 C, and utilizing conditions as set forth ove. In a preferred embodiment, the Tm is 60°C; in a more preferred embodiment, the Tm is 63°C; an even more preferred embodiment, the Tm is 65 C.
ist-hybridization washes also determine stringency conditions. One set of preferred conditions cs a series of washes starting with 6X SSC, 0.5% SDS at room temperature for 15 minutes (min), jn repeated with 2X.SSC, 0.5% SDS at 45°C for 30 minutes, and then repeated twice with 0.2X 1C. 0.5% SDS at 50°C for 30 minutes. A more preferred set of stringent conditions uses higher nperatures in which the washes are identical to those above except for the temperature of the final

two 30 min washes in 0.2X SSC, 0.5% SDS was increased to 60°C. Another preferred set of highly stringent conditions uses two final washes in 0.1X SSC, 0.1% SDS at 65°C. Hybridization requires that the two nucleic acids comprise complementary sequences, although depending on the stringency of the hybridization, mismatches between bases are possible.
The appropriate stringency for hybridizing nucleic acids depends on the length of the nucleic acids and the degree of complementation, variables well known in the art. The greater the degree of similarity or homology between two nucleotide sequences, the greater the value ofTm for hybrids of nucleic acids having those sequences. The relative stability (corresponding to higher Tm) of nucleic acid hybridi/ations decreases in the following order; RNA:RNA, DNA:RNA, DNA:DNA. For hybrids of greater than 100 nucleotidcs in length, equations for calculating Tm have been derived (see Sambrook et al., supra, 9.50-0.51). For hybridization with shorter nucleic acids, i.e., oligonucleotidcs, the position of mismatches becomes more important, and the length of the oligonucleotidc determines its specificity (see Sambrook et al., supra, 11.7-11.8)
In a specific embodiment of the invention, polynucleotides are detected by employing hybridization conditions comprising a hybridization step in less than 500 mM slat and at least 37 degrees Celsius, and a washing step in 2XSSPE at least 63 degrees Celsius. In a preferred embodiment, the hybridization conditions comprise less than 200 mM salt and at least 37 degrees Celsius for the hybridization step. In a more preferred embodiment, the hybridization conditions comprise 2XSSPE and 63 degrees Celsius for both the hybridization and washing steps.
In one embodiment, the length for a hybridizable nucleic acid is at least about 10 nucleotidcs. Preferable a minimum length for a hybridizable nucleic acid is at least about 15 nucleotides; more preferably at least about 20 nucleotides; and most preferably the length is at least 30 nucleotidcs. Furthermore, the skilled artisan will recognize that the temperature and wash solution salt concentration may be adjusted as necessary according to factors such as length of the probe.
The term "probe" refers to a single-stranded nucleic acid molecule that can base pair with a complementary single stranded target nucleic acid to form a double-stranded molecule.
As used here, the term "oligonucleotide" refer to a nucleic acid, generally of at least 18 nucleotides, that is hybridizable to a genomic DNA molecule, a cDNA molecule, a plasmid DNA or an mRNA molecule. Oligonucleotidcs can be labeled, e.g., with 32P-nucleotides or nucleotides to which a label, such as biotin, has been covalently conjugated. A labeled oligonucleotide can be used as a probe to detect the presence of a nucleic acid. Oligonucleotides (one or both of which may be labeled) can be used as PCR primers, either for cloning full length or a fragment of a nucleic acid, or to detect the presence of a nucleic acid. An oligonucleotide can also be used to form a triple helix with a DNA synthesizer. Accordingly, Oligonucleotides can be prepared with non-naturally occurring phosphoester analog bonds, such as thioester bonds, etc.
A "primer" is an oligonucleotide that hybridizes to a target nucleic acid sequence to create a double stranded nucleic acid region that can serve as an initiation point for DNA synthesis under suitable conditions. Such primers may be used in a polymerase chain reaction.
"Polymerase chain reaction" is abbreviated PCR and mean an in vitro method for enzymatically amplifying specific nucleic acid sequences. PCR involves a repetitive series of temperature cycles with each cycle comprising three stages: denaturation of the template nucleic acid to separate the strands of the target molecule, annealing a single stranded PCR oligonucleotide primer to the template nucleic acid, and extension of the annealed primer(s) by DNA polymerase. PCR provides a means to detect the presence of the target molecule and, under quantitative or semi-quantitative conditions, to determine the relative amount of that target molecule within the starting pool of nucleic acids.
"Reverse transcription-polymerase chain reaction" is abbreviated RT-PCR and means an in vitro method for enzymatically producing a target cDNA molecule or molecules from an RNA molecule or molecules, followed by enzymatic amplification of a specific nucleic acid sequence or sequences within the target cDNA molecule or molecules as described above. RT-PCR also provides a means to detect the presence of the target molecule and, under quantitative or semi-quantitative conditions, to determine the relative amount of the target molecule within the starting pool of nucleic acids.

A DNA "coding sequence" is a double-stranded DNA sequence that is transcribed and translated into a polypcptidc in a cell in vitro or in vivo when placed under the control of appropriate regulatory sequences. "Suitable regulatory sequences" refer to nucleotide sequences located upstream (5' non-coding sequences), within, or downstream (3' non-coding sequences) of a coding sequence, and which influence the transcription, RNA processing or stability, or translation of the associated coding sequence. Regulatory sequences may include promoters, translation leader sequences, introns, polyadenylation recognition sequences, RNA processing site, effectors binding site and stem-loop structure. The boundaries of the coding sequence are determined by start codon at the 5' (amino) terminus and a translation stop codon at the 3' (carboxyl) terminus. A coding sequence can include, but is not limited to, prokaryotic sequences, cDNA from mRNA, genomic DNA sequences, and even synthetic DNA sequences. If the coding sequence is intended for expression in a eukaryotic cell, a polyadenylation signal and transcription termination sequence will usually be located 3' to the coding sequence.
"Open reading frame" is abbreviated ORF and means a length of nucleic acid sequence, either DNA, cDNA or RNA, that comprises a translation start signal or initiation codon, such as an ATG or AUG, and termination codon and can be potentially translated into a polypeptide sequence.
The term "head-to-head" is used herein to describe the orientation of two polynucleotide sequences
in relation to each other. Two polynucleotides are positioned in a head-to-head orientation when the
5' end of the coding strand of one polynucleotide is adjacent to the 5' end of the coding strand of
I he other polynucleotide, whereby the direction of transcription of each polynucleotide proceeds
away from the 5' end of the other polynucleotide. The term "head-to-head" may be abbreviated
(V)-to-(5') and may also be indicated by the symbols (3').
The term "tail-to-tail" is used herein to describe the orientation of two polynucleotide sequences in relation to each other. Two polynucleotides are positioned in a tai-to-tail orientation when the 3' end of the coding strand of one polynucleotide is adjacent to the 3' end of the coding strand of the other polynucleotide, whereby the direction of transcription of each polynucleotide proceeds toward the other polynucleotide. The term "tail-to-tail" may be abbreviated (3')-to-(3') and may also be indicated by the symbols (-> The term "hcad-to-tail" is used herein to describe the orientation of two polynucleotide sequence in relation to each other. Two polynucleotides are positioned in a head-to-tail orientation when the 5' end of the coding strand of one polynucleotide is adjacent to the 3' end of the coding strand of the other polynucleotide, whereby the direction of transcription of each polynucleotide proceeds in the same direction as that of the other polynucleotide. The term "head-to-tail" may be abbreviated (5')-to-(3') an may also be indicated by the symbols (-»—>) or (5'—»3'5'—»3').
The term "downstream" refers to a nucleotide sequence that is located 3' to reference nucleotide sequence. In particular, downstream nucleotide sequences generally relate to sequences that follow the starting point of transcription. For example, the translation initiation codon of a gene is located downstream of the start site of transcription.
The term "upstream" refers to a nucleotide sequence that is located 5' to reference nucleotide sequence. In particular, upstream nucleotide sequences generally relate to sequences that are located on the 5' side of a coding sequence or starting point of transcription. For example, most promoters are located upstream of the start site of transcription.
The terms "restriction endonuclease" and "restriction enzyme" refer to an enzyme that binds and cuts within a specific nucleotide sequence within double stranded DNA.
"1 lomologous recombination" refers to the insertion of a foreign DNA sequence into another DNA molecule, e.g., insertion of a vector in a chromosome. Preferably, the vector targets a specific chromosomal site for homologous recombination. For specific homologous recombination, the vector will contain sufficiently long regions of homology to sequences of the chromosome to allow complementary binding and incorporation of the vector into the chromosome. Longer regions of homology, and greater degrees of sequence similarity, may increase the efficiency of homologous recombination.

Several methods known in the art may be used to propagate a polynucleotide according to the invention. Once a suitable host system and growth conditions are established, recombinant expression vectors can be propagated and prepared in quantity. As described herein, the expression vectors which can be used include, but are not limited to, the following vectors or their derivatives: human or animal viruses such as vaccinia virus or adenovirus; insect viruses such as baculovirus; yeast vectors; bacteriophage vectors (e.g., lambda), and plasmid and cosmid DNA vectors, to name but a few.
A "vector" is any means for the cloning of and/or transfer of a nucleic acid into a host cell. A vector may be a rcplicon to which another DNA segment may be attached so as to bring about the replication of the attached segment. A "replicon" is any genetic element (e.g., plasmid, phage, cosmid, chromosome, virus) that functions as an autonomous unit of DNA replication in vivo, i.e., capable of replication under its own control. The term "vector" includes both viral and nonviral means for introducing the nucleic acid into a cell in vitro, ex vivo or in vivo. A large number of vectors known in the art may be used to manipulate nucleic acids, incorporate response elements and promoters into genes, etc. Possible vectors include, for example, plasmids or modified viruses including, for example bacteriophages such as lambda derivatives, or plasmids such as pBR322 or pl.;r plasmid derivatives, or the Bluescript vector. For example, the insertion of the DNA fragments corresponding to response elements and promoters into a suitable vector can be accomplished by ligatingt the appropriate DNA fragments into a chosen vector that has complementary cohesive termini. Alternatively, the ends of the DNA molecules may be enzymatically modified or any site may be produced by ligating nucleotide sequences (linkers) into the DNA termini. Such vectors may be engineered to contain selectable marker genes that provide for the selection of cells that have incorporated the marker into the cellular genome. Such markers allow identification and/or selection of host cells that incorporate and express the proteins encoded by the marker.
Viral vectors, and particularly retroviral vectors, have been used in a wide variety of gene delivery applications in cells, as well as living animal subjects. Viral vectors that can be used included but arc not limited to retro virus, adeno-associated virus, pox, baculovirus, vaccinia, herpes simples, Fpstcin-Barr, adenovirus, geminivirus, and caulimovirus vectors. Non-viral vectors include plasmuls. liposomcs, electrically charged lipids (cytofectins), DNA-protein complexes, and biopolymers. In addition to a nucleic acid, a vector may also comprise one or more regulatory regions, and/or selectable markers useful in selecting measuring, and monitoring nucleic acid transfer results (transfer to which tissues, duration of expression, etc.)
The terms "plasmid" refers to an extra chromosomal element often carrying a gene that is not part of the central metabolism of the cell, and usually in the form of circular double-stranded DNA molecules. Such elements may be autonomously replicating sequences, genome integrating sequences, phage or nucleotide sequences, linear, circular, or supercoiled, of a single- or double-stranded DNA or RNA, derived from any source, in which a number of nucleotide sequences have been joined or recombined into a unique construction which is capable of introducing a promoter fragment and DNA sequence for a selected gene product along with appropriate 3' untranslated sequence into a cell.
A "cloning vector" is a "replicon", which is a unit length of a nucleic acid, preferable DNA, that replicates sequentially and which comprises an origin of the replication, such as a plasmid, phage or cosmid, to which another nucleic acid segment may be attached so as to bring about the replication of the attached segment. Cloning vectors may be capable of replication in one cell type and expression in another ("shuttle vector").
Vectors may be introduced into the desired host cells by methods known in the art, e.g., trans lection, elcctroporation, microinjection, transduction, cell fusion, DEAE dextran, calcium phosphate precipitation, lipofection (lysosome fusion), use of a gene gun, or a DNA vector transporter (see, e.g., Wu et al., 1992, J. Biol. Chem. 267:963-967; Wu and Wu, 1988, J. Biol. Cliein. 263:14621-14624; and Hartmut et al., Canadian Patent Application No. 2,012,311, filed March 15. 1990).
A polynucleotide according to the invention can also be introduced in vivo by lipofection. For the past decade, there has been increasing use of liposomes for encapsulation and transfection of nucleic acids in vitro. Synthetic cationic lipids designed to limit the difficulties and dangers

encountered with liposomc-mcdiated trans lection can be used to prepare liposomcs for in vivo transfcction of a gene encoding a marker (Feigner et al., 1987, Proc. Natl. Acad. Sci. U.S.A. 84:7413; Mackey, ct al., 1998, Proc. Natl. Acad. Sci. U.S.A. 85:8027-8031; and Ulmer et al., 1993, Science 259:1745-1748). The use of cationic lipids may promote encapsulation of negatively charged nucleic acids, and also promote fusion with negatively charged cell membranes (Feigner and Ringold, 1989, Science 337:387-388). Particularly useful lipid compounds and compositions for transfer of nucleic acids are described in International Patent Publications WO95/18863 and WO96/17823, and in U.S. Patent No. 5,459,127. The use of lipofection to introduce exogenous genes into the specific organs in vivo has certain practical advantages. Molecular targeting of liposomcs to specific cells represents one area of benefit. It is clear that directing transfection to particular cell types would be particularly preferred in a tissue with cellular heterogeneity, such as pancreas, liver, kidney, and the brain. Lipids may be chemically coupled to other molecules for the purpose of targeting (Mackey, et al., 1988, supra). Targeted peptides, e.g., hormones or neurotransmittcrs, and proteins such as antibodies, or non-peptide molecules could be coupled to liposomcs chemically.
Other molecules are also useful for facilitating transfection of a nucleic acid in vivo, such as a cationic oligopcptide (e.g., WO95/21931), peptides derived from DNA binding proteins (e.g., WO 96/25508), or a cationic polymer (e.g., WO 95/219331).
It is also possible to introduce a vector in vivo as a naked DNA plasmid (see U.S. Patents 5.693.622, 5,589,466 and 5,580,859). Receptor-medicated DNA delivery approaches can also be use (Curiol et al., 1992, Hum. Gene Ther. 3:147-154; and Wu and Wu, 1987, J. Biol. Chem. 262:
4429-4432).
The terms "transfection" means the uptake of exogenous or heterologous RNA or DNA by a cell. A cell has been "transfccted" by exogenous or heterologous RNA or DNA when such RNA or DNA has been introduced inside the cell. A cell has been "transformed" by exogenous or helerologous RNA or DNA when the transfected RNA or DNA effects a phenotypic change. The transforming RNA or DNA can be integrated (covalently linked) into chromosomal DNA making up the genome of the cell.
•Transformation" refers to the transfer of a nucleic acid fragment into the genome of a host organism, resulting in genetically stable inheritance. Host organisms containing the transformed nucleic acid fragments are referred to as "transgenic" or "recombinant" or "transformed" organisms.
The term "genetic region" will refer to a region of a nucleic acid molecule or a nucleotide sequence that comprises a gene encoding a pOolypepotide.
In addition, the recombinant vector comprising a polynucleotide according to the invention may include one or more origins for replication in the cellular hosts in which their amplification or their expression is sought, markers or selectable markers.
The term "selectable marker" means as identifying factor, usually an antibiotic or chemical resistance, gene, that is able to be selected for based upon the marker gene's effect, i.e., resistance to an antibiotic, resistance to a herbicide, colorimetric markers, enzymes, fluorescent markers, and the like, wherein the effect is used to track the inheritance of a nucleic acid of interest and/or to identify a cell or organism that has inherited the nucleic acid of interest. Examples of selectable marker genes known and used in the art include: genes providing resistance to ampicillin, streptomycin, gentamycin, kanamycin, hygromycin, bialaphos herbicide, sulfonamide, and the like; and genes that are used as phenotypic markers, i.e., anthocyanin regulatory genes, isopentanyl transferase gene, and the like.
The term "reporter gene" means a nucleic acid encoding an identifying factor that is able to be identified based'upon the reporter gene's effect, wherein the effect is used to track the inheritance of a nucleic acid of interest, to identify a cell or organism that has inherited the nucleic acid of interest, and/or to measure gene expression induction or transcription. Examples of reporter genes known and used in the art include: luciferase (Luc), green fluorescent protein (GFP), chloramphenicol acetyltransfcrase (CAT), p-galactosidase (Lacz), p-glucuronidase (Gus), and the like. Selectable marker genes may also be considered reporter genes.

"Promoter" refers to a DNA sequence capable of controlling the expression of a coding sequence of functional RNA. In general, a coding sequence is located 3' to a promoter sequence. Promoters may be derived in their entirety from a native gene, or be composed of different elements derived from different promoters found in nature, or even comprise synthetic DNA segments. It is understood by those skilled in the art that different promoters may direct the expression of a gene in different tissues or cell types, or at different stages of development, or in response to different environmental or physiological conditions. Promoters that cause a gene to be expressed in most cell types at most times arc commonly referred to as "constitutive promoters". Promoters that cause a gene to be expressed in a specific cell type are commonly referred to as "cell-specific promoters" or "tissue-specific promoters". Promoters that cause a gene to be expressed at a specific stage of development or cell differentiation are commonly referred to as "developmentally-specific promoters" or "cell differentiation-specific promoters". Promoters that are induced and cause a gene to be expressed following exposure or treatment of the cell with an agent, biological molecule, chemical, ligand, light, or the like that induces the promoter are commonly referred to as "inducible promoters" or "regulatablc promoters". It is further recognized that since in most cases the exact boundaries of regulatory sequences have not been completely defied, DNA fragments of different lengths may have identical promoter activity.
A "promoter sequence" is a DNA regulatory region capable of binding RNA polymerase in a cell and initiating transcription of a downstream (3' direction) coding sequence. For purposes of defining the present invention, the promoter sequence is bounded at its 3' terminus by the transcription initiation site and extends upstream (5' direction) to include the minimum number of bases or elements necessary to initiate transcription at levels detectable above background. Within the promoter sequence will be found a transcription initiation site (conveniently defined for example, by mapping with nuclease SI), as well as protein binding domains (consensus sequences) responsible for the binding or RNA polymerase.
A coding sequence is "under the control" of transcriptional and translational control sequences in a cell when RNA polymerase transcribes the coding sequence into mRNA, which is then trans-RNA spliced (if the coding sequence contains introns) and translated into the protein encoded by the
coding sequence.
••Transcriptional and translational control sequences" are DNA regulatory sequences, such as promoters, enhancers, terminators, and the like, that provide for the expression of a coding sequence in a host cell. In cukaryotic cells, polyadenylation signals are control sequences.
The term "response element" means one or more cis-acting DNA elements which confer responsiveness on promoter mediated through interaction with the DNA-binding domains of the first chimcrie gene. This DNA element may be either palindromic (perfect or imperfect) in its sequence or composed of sequence motifs or half sites separated by a variable number of nuclcotides. The half sites can be similar or identical and arranged as either direct or inverted repeats or as a single half site or multimers of adjacent half sites in tandem. The response element may comprise a minimal promoter isolated from different organisms depending upon the nature of the cell or organism into which the response element will be incorporated. The DNA binding domain of the first hybrid protein binds, in the presence or absence of a ligand, to the DNA sequence of a response element to initiate or suppress transcription of downstream gene(s) under the regulation of this response element. Examples of DNA sequences for response elements of the natural ecdysonc receptor include: RRGG/TTCANTGAC/ACYY (see Cherbas L., et. al, (1991), Genes Dev. 5, 120-131); AGGTCAN(n)AGGTCA, where N(n) can be one or more spacer nucleotides (sec D'Avmo PP., et. al., (1995), Mol. Cell, endocrinol, 113-1-9); and GGGTTGAATGAATTT (sec Antoniewski C., et. AL, (1994). Mol. Cell Biol. 14, 4465-4474).
The term "opcrably linked" refers to the association of nucleic acid sequences on a single nucleic acid fragment so that the function of one is affected by the other. For example, a promoter is operably linked with a coding sequence when it is capable of affecting the expression of that coding sequence (i.e., that the coding sequence is under the transcriptional control of the promoter). Coding sequences can be opcrably linked to regulatory sequences in sense or antisense orientation.
The term "expression", as used herein, refers to the transcription and stable accumulation of sense (mRNA) or antisense RNA derived from a nucleic acid or polynucleotide. Expression may also refer to translation of mRNA into a protein or polypeptide.

The terms "cassette", "expression cassette" and "gene expression cassette" refer to a segment of DNA that can be inserted into a nucleic acid or polynucleotide at specific restriction sites or by homologous recombination. The segment of DNA comprises a polynucleotide that encodes a polypcptide of interest, and the cassette and restriction sites are designed to ensure insertion of the cassetle in the proper reading frame for transcription and translation. "Transformation cassette" refers to a specific vector comprising a polynucleotide that encodes a polypeptide of interest and having elements in addition to the polynucleotide that facilitate transformation of a particular host cell. Cassettes, expression cassettes, gene expression cassettes and transformation cassettes of the invention may also comprise elements that allow for enhanced expression of a polynucleotide encoding a polypeptide of interest in a host cell. These elements may include, but are not limited to: a promoter, a minimal promoter, an enhancer, a response element, a terminator sequence, a polvadenylation sequence, and the like.
For purpose of this invention, the term "gene switch" refers to the combination of a response clement associated with a promoter, and an EcR-based system, which in the presence of one or more ligands, modulated the expression of a gene into which the response element and promoter are
incorporated.
The terms "modulate" and "modulates" mean to induce, reduce or inhibit nucleic acid or gene expression, resulting in the respective induction, reduction or inhibition of protein or polypeptide production.
The plasmids or vectors according to the invention may further comprise at least one promoter suitable for driving expression of a gene in a host cell. The term "expression vector" means vector, plasmicl or vehicle designed to enable the expression of an inserted nucleic acid sequence following transformation into the host. The cloned gene, i.e., the inserted nucleic acid sequence, is usually placed under the control of control elements such as a promoter, a minimal promoter, an enhancer, or the like. Initiation control regions or promoters, which are useful to drive expression of a nucleic acid in the desired host cell are numerous and familiar to those skilled in the art. Virtually any promoter capable of driving these genes is suitable for the present invention including but not limited to: viral promoters, bacterial promoters, animal promoters, mammalian promoters, synthetic promoters, constitutive promoters, tissue specific promoter, developmental specific promoters, inclucible promoters, light regulated promoters; CYC1, HISS, GAL1, GAL4, GAL10, ADlil, PGK, 1M105, GAPDH, ADC1, TRP1, URA3, LEU2, ENO, TP1, alkaline phosphatasc promoters (useful for expression in Saccharomyces); AOX1 promoter (useful for expression in Pichia); pMactamase, lac, ara, let, trp, 11\, IPu, T7, tac, and trc promoters (useful expression in Escheriehia coli); light regulated-, seed specific-, pollen specific-, ovary specific-, pathogenesis or disease related-, cauliflower mosaic virus 35S, CMV 35S minimal, cassava vein mosaic virus (CsVMV), chlorophyll a-'b binding protein, ribulose 1, 5-bisphosphate carboxylase, shoot-specific, root specific, chitinasc, stress inclucible, rice tungro bacilliform virus, plant super-promoter, potato leucine aminopeptidase, nitrate rcductasc, mannopine synthase, nopaline synthase, ubiquitin, zein protein, and anthocyanin promoters (useful for expression in plant cells); animal and mammalian promoters known in the art include, but are not limited to, the SV40 early (SV40e) promoter region, the promoter contained in the 3' long terminal repeat (LTR) or Rous sarcoma virus (RSV), the promoters of the E1A or major late promoter (MLP) genes of adenoviruses (Ad), the cytomegalovirus (CMV) early promoter, the herpes simplex virus (HSV) thymidinc kinase (TK) promoter, a baculovirus IE1 promoter, an elongation factor 1 alpha (EF1) promoter, a phosphoglycerate kinase (PGK) promoter, a ubiquitin (Ubc) promoter, an albumin promoter, the regulatory sequences of the mouse metallothionein-L promoter and transcriptional control regions, the ubiquitous prompters (HPRT, vimentin, a-actin, tubulin and the like), the promoters of the intermediate filaments (desmin, neurofilmaments, keratin, GF'AP, and like), the promoters of therapeutic genes (of the MDR, CFTR or factor VIII type, and the like), pathogenesis or disease related-promoters, and promoters that exhibit tissue specificity and have been utilized in transgenic animals, such as the elastase I gene control region which is active in pancreatic acinar cells; insulin gene control region active in pancreatic beta cells, immunoglobulin gene control region active in lymphoid cells, mouse mammary tumor virus control region active in testicular, breast, lymphoid and mast cells; albumin gene, Apo AI and Apo All control regions active in liver, alpha-fetoprotein gene control region active in liver, alpha 1-antilrypsin gene control region active in the liver, beta-globin gene control region active in myeloid

cells, myclin basic protein gene control region active in oligodendrocyte cells in the brain, myosin light chain-2 gene control region active in skeletal muscle, and gonadotropic releasing hormone gene control region active in the protein, promoter of the smooth muscle cell a-actin, and the like. In addition, these expression sequences may be modified by addition of enhancer or regulatory sequences and the like.
Hnhanccrs that may be used in embodiments of the invention include but are not limited to: an SV40 enhancer, a cytomegalovirus (CMV) enhancer, an elongation factor 1 (EF1) enhancer, yeast enhancers, viral gene enhancers, and the like.
Termination control regions, i.e., terminator or polyadenylation sequences, may also be derive from various genes native to the preferred hosts. Optionally, a termination site may be unnecessary however, it is most preferred if included. In a preferred embodiment of the invention, the termination control region may be comprise or be derived from a synthetic sequence, synthetic polyadenylation signal, an SV40 late polyadenylation signal, an SV40 polyadenylation signal, a bovine growth hormone (BGM) polyadenylation signal, viral terminator sequences, or the like.
The terms "3' non-coding sequences" or "3' untranslated region (UTR)" refer to DNA sequences located downstream (3') of a coding sequence and may comprise polyadenylation [poly(A)J recognition sequences and other sequences encoding regulatory signals capable of affecting mRNA processing or gene expression. The polyadenylation signal is usually characterized by affecting the addition of polyadenylic acid tracts to the 3' end of the mRNA precursor.
••Regulatory region" means a nucleic acid sequence that regulates the expression of a second nucleic acid sequence. A regulatory region may include sequences which are naturally responsible for expressing a particular nucleic acid (a homologous region) or may include sequences of a different origin that are responsibility for expressing different proteins or even synthetic proteins (a hctcrologous region). In particular, the sequences can be sequences of prokaryotic, eukaryotic, or viral genes or derived sequences that stimulate or repress transcription of a gene in a specific or non-specific manner and in an inducible or non-inducible manner. Regulatory regions include origins of replication, UNA splice sites, promoters, enhancers, transcriptional termination sequences, and signal sequences which direct the polypeptide into the secretory pathways of the target cell.
A regulatory region from a "hcterologous source" is a regulatory region that is not naturally associated with the expressed nucleic acid. Included among the heterologous regulatory regions are regulatory regions from a different species, regulatory regions from a different gene, hybrid regulatory sequences, and regulatory sequences which do not occur in nature, but which are designed by one having ordinary skill in the art.
"UNA transcript" refers to the products resulting from RNA polymerase-catalyzed transcription of
a DNA sequence. When the RNA transcript is a perfect complementary copy of the DNA sequence,
it is referred to as the primary transcript or it may be a RNA sequence derived from post-
transcriptional processing of the primary transcript and is referred to as the mature RNA.
"Messenger UNA (mRNA)" refers to the RNA that is without introns and that can be translated into
protein by the cell. "cDNA" refers to a double-stranded DNA that is complementary to and derived
from mRNA. "Sense" RNA refers to RNA transcript that includes the mRNA and so can be
translated into protein by the cell. "Antisense RNA" refers to a RNA transcript that is
complementary to all or part of a target primary transcript or mRNA and that blocks the expression
of a target gene. The complementarily of an anii«pn«p RNA may be with any part of the specific
gene transcript, i.e., at the 5' non-coding H non-coding sequence, or the coding
sequence. "Functional RNA" refers to antis i ^yme RNA, or other RNA that is not
translated yet has an effect on cellular proccs R.-C-COOH
A "polypeptide" is a polymeric compound ' )valently linked amino acid residues.
Ammo acids have the following general strut ^2
Amino acids are classified into seven groups on the basis of the side chain R: (1) aliphatic side chains. (2) side chains containing a hydroxylic (OH) group, (3) side chains containing sulfur atoms, (4) side chains containing an acidic or amide group, (5) side chains containing a basic group, (6)

side chains containing an aromatic ring, and (7) proline, an imino acid in which the side chain is
1 used to the amino group. A polypeptide of the invention preferably comprises at least about 14
amino acids.
A "protein" is a polypeptide that performs a structural or functional role in a living cell.
An "isolated polypeptide" or "isolated protein" is a polypeptide or protein that is substantially free of those compounds that are normally associated therewith in its natural state (e.g., other proteins or polypcptidcs, nucleic acids, carbohydrates, lipids). "Isolated" is not meant to exclude artificial or synthetic mixtures with other compounds, or the presence of impurities which do not interfere with biological activity, and which maybe present, for example, due to incomplete purification, addition of stabili/er, or compounding into a pharmaceutically acceptable preparation.
A 'substitution mutant polypeptide" or a "substitution mutant" will be understood to mean a mutant polypeptide comprising a substitution of at least one (1) wild-type or naturally occurring amino acid with a different amino acid relative to the wild-type or naturally occurring polypeptide. A substitution mutant polypeptide may comprise only one (1) wild-type or naturally occurring amino acid substitution and may be referred to as a "point mutant" or a "single point mutant" polypeptide. Alternatively, a substitution mutant polypeptide may comprise a substitution of two (2) or more wild-type or naturally occurring amino acids with 2 or more amino acids relative to the wild-type or naturally occurring polypeptide. According to the invention, a Group H nuclear receptor ligand binding domain polypeptide comprising a substitution mutation comprises a substitution of at least one (1) wild-type or naturally occurring amino acid with a different amino acid relative to the wild-type or naturally occurring Group H nuclear receptor ligand binding domain polypeptide.
Wherein the substitution mutant polypeptide comprises a substitution of two (2) or more wild-type or naturally occurring amino acids, this substitution may comprise cither an equivalent number of wild-type or naturally occurring amino acids deleted for the substitution, i.e., 2 wild-type or naturally occurring amino acids replaced with 2 non-wild-type or non-naturally occurring amino acids, or a non-equivalent number of wild-type amino acids deleted for the substitution, i.e., 2 wild-type amino acids replaced with 1 non-wild-type amino acid (a substitution + deletion mutation), or
2 wild-type amino acids replaced with 3 non-wild-type amino acids (a substitution + insertion
mutation). Substitution mutants may be described using an abbreviated nomenclature system to
indicate the amino acid residue and number replaced within the reference polypeptide sequence and
the new substituted amino acid residue. For example, a substitution mutant in which the twentieth
(20th) amino acid residue of a polypeptide is substituted may be abbreviated as "x20z", wherein "x"
is the amino acid to be replaced, "20" is the amino acid residue position or number within the
polypeptide, and "/" is the new substituted amino acid. Therefore, a substitution mutant abbreviated
interchangeably as "H20A" or "Glu20Ala" indicates that the mutant comprises an alanine residue
(commonly abbreviated in the art as "A" or "Ala") in place of the glutamic acid (commonly
abbreviated in the art as "E" or "Glu") at position 20 of the polypeptide. A mutation or mutant can
be any change, including but not limited to substitution, deletions, insertions, or any combination
thereof.
A substitution mutation may be made by any technique for mutagenesis known in the art, including but not limited to, in vitro site-directed mutagenesis (Hutchinson, C., et al., 1978, J. Biol. Chem. 253:6551; /.oiler and Smith, 1984, DNA 3:479-488; Oliphant et al 1986, Gene 44:177; Hutchinson ct al., 1986, Proc. Natl. Acad. Sci. U.S.A. 83:710), use of TAB® linkers (Pharmacia), restriction endonucieasc digestion/fragment deletion and substitution, PCR-mediated/oligonucleotide-directed mutagenesis, and the like. PCR-based techniques are preferred for site-directed mutagenesis (se lliguchi, 1989, "Using PCR to Engineer DNA", in PCR Technology: Principles and Applications for DNA Amplification, H. Erlich, cd., Stockton Press, Chapter 6, pp. 61-70).
"Fragment" of a polypeptide according to the invention will be understood to mean a polypeptide whose amino acid sequence is shorter than that of the reference polypeptide and which comprises, over the entire portion with these reference polypeptides, an identical amino acid sequence. Such fragments may, where appropriate, be included in larger polypeptide of which they are a part. Such fragments of a polypeptide according to the invention may have a length of at least 2, 3, 4, 5, 6, 8, 10, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 25, 26, 30, 35, 40, 45, 50, 100, 200, 240 or 300 amino acids.

A "variant" of a polypeptide or protein is any analogue, fragment, derivative, or mutant which is derived from a polypeptide or protein and which retains at least one biological property of the polypeptide or protein. Different variants of the polypeptide or protein may exist in nature. These variants may be allelic variations characterized by differences in the nucleotide sequence structural gene coding for the protein, or may involve differential splicing or post-translation modification. The skilled artisan can produce variants having single or multiple amino acid substitution, deletions, additions, or replacements. These variants may include, inter alia: (a) variants in which one or more amino acid residues are substituted with conservative or non-conservative amino acids, (b) variants in which one or more amino acids are added to the polypeptide or protein, (c) variants in which one or more of the amino acids includes a substituent group, and (d) variants in which the polypeptide or protein is fused with another polypeptide such as serum albumin. The techniques for obtaining these variants, including genetic (suppressions, deletions, mutations, etc.), chemical, and enzymatic techniques, are known to persons having ordinary skill in the art. A variant polypeptide preferably comprises at least about 14 amino acids.
A "heterologous protein" refers to a protein not naturally produced in the cell.
A "mature protein" refers to a post-translationally processed polypeptide; i.e., one from which any pre-or propcptides present in the primary translation product have been removed. "Precursor" protein refers to the primary product of translation of mRNA; i.e., with pre-and propeptidcs still present. Pre-and propeptidcs may be but are not limited to intracellular localization signals.
The term "single pcptide" refers to an amino terminal polypeptide preceding the secreted mature protein. The signal peptidc is cleaved from and is therefore not present in the mature protein. Signal peptidcs have the function of directing and translocating secreted proteins across cell membranes. Signal peptide is also referred to as signal protein.
A "signal sequence" is included at the beginning of the coding sequence of a protein to be expressed on the surface of a cell. This sequence encodes a signal peptide, N-terminal to the mature polypeptide, that directs the host cell to translocate the polypeptide. The term "translocation signal sequence" is used herein to refer to this sort of signal sequence. Translocation signal sequences can he found associated with a variety of proteins native to eukaryotes and prokaryotes, and are often functional in both types of organisms.
The term "homology" refers to the percent of identity between two polynucleotidc or two polypeptide moieties. The correspondence between the sequence from one moiety to another can be determined by techniques known to the art. For example, homology can be determined by a direct comparison of the sequence information between two polypeptide molecules by aligning the sequence information and using readily available computer programs. Alternatively, homology can be determined by hybridization of polynucleotides under conditions that form stable duplexes between homologous regions, followed by digestion with single-stranded-specific nuclease(s) and size determination of the digested fragments.
As used herein, the term "homologous" in all its grammatical forms and spelling variations refers to the relationship between proteins that possess a "common evolutionary origin," including proteins from superiamilies (e.g., the immunoglobulin superfamily) and homologous proteins from different species (e.g., myosin light chain, etc.) (Reeck et al., 1987, Cell 50: 667.). Such proteins (and their encoding genes) have sequence homology, as reflected by their high degree of sequence similarity. However, in common usage and in the instant application, the term "homologous," when modified with an adverb such as "highly," may refer to sequence similarity and not a common evolutionary origin.
Accordingly, the term "sequence similarity" in all its grammatical forms refers to the degree of identity or correspondence between nucleic acid or amino acid sequences of proteins that may or may not share a common evolutionary origin (see Reeck et al., 1987, Cell 50; 667).

In a specific embodiment, two DNA sequences are "substantially homologous" or "substantially similar" when at least about 50% (preferably at least about 75%, and most preferably at least about 90 01 95%) of the nuclcotides match over the defined length of the DNA sequences. Sequences that are substantially homologous can be identified by comparing the sequences using standard software available in sequence data banks, or in a Southern hybridization experiment under, for example, stringent conditions as defined for the particular system. Defining appropriate hybridization conditions is within the skill of the art. See, e.g., Sambrook et al., 1989, supra.
As used herein, "substantially similar" refers to nucleic acid fragments wherein changes in one or more nucleotidc bases results in substitution of one or more amino acids, but do not affect the functional properties of the protein encoded by the DNA sequence. "Substantially similar" also refers to nucleic acid fragments wherein changes in one or more nucleotide bases does not affect the ability of the nucleic acid fragment to mediate alteration of gene expression by antisensc or co-suppression technology. "Substantially similar" also refers to modifications of the nucleic acid fragments of the instant invention such as deletion or insertion of one or more nucleotide bases that do not substantially affect the functional properties of the resulting transcript. It is therefore understood that the invention encompasses more than the specific exemplary sequence. Each of the proposed modifications is well within the routine skill in the art, as is determination of retention of biological activity of the encoded products.
Moreover, the skilled artisan rccogni/es that substantially similar sequences encompassed by this invention are also defined by their ability to hybridize, under stringent conditions (0.1X SSC, 0.1%SDS, 65°C and washed with 2X SSC, 0.1% SDS followed by 0.1 X SSC, 0.1% SDS), with the sequence exemplified herein. Substantially similar nucleic acid fragments of the instant invention arc those nucleic acid fragments whose DNA sequences are at least 70% identical to the DNA sequence of the nucleic acid fragments reported herein. Preferred substantially nucleic acid fragments of the instant invention are those nucleic acid fragments whose DNA sequences are at least 80% identical to the DNA sequence of the nucleic acid fragments reported herein. More preferred nucleic acid fragments are at least 90% identical to the DNA sequence of the nucleic acid fragments reported herein. Even more preferred are nucleic acid fragments that arc least 95% identical to the DNA sequence of the nucleic acid fragments reported herein.
Two amino acid sequences are "substantially homologous" or "substantially similar" when greater than about 40% of the amino acids are identical, or greater than 60% are similar (functionally identical). Preferably, the similar or homologous sequences are identified by alignment using, for example, the GCG (Genetics Computer Group, Program Manual for the GCG Package, Version 7, Madison, Wiscosin) pileup program.
The term "corresponding to" is used herein to refer to similar or homologous sequences, whether the exact position is identical or different from the molecule to which the similarity or homology is measured. A nucleic acid or amino acid sequence alignment may include spaces. Thus, the term "corresponding to" refers to the sequence similarity, and not the numbering of the amino aicd residues or nueleotidcs bases.
A "substantial portion" of an amino acid or nucleotide sequence comprises enough of the amino acid sequence of a polypeptide or the nucleotide sequence of a gene to putatively identify that polypeptide or gene, either by manual evaluation of the sequence by one skilled in the art, or by computer-automated sequence comparison and identification using algorithms such as BLAST (Basic Local Alignment Search Tool; Altschul, S.F., et al., (1993) J. Mol. Biol. 215: 403-410; sec also www.ncbi.nlm.nih.gov/BLAST/). In general, a sequence of ten or more contiguous amino acids or thirty or more nucleotides is necessary in order to putatively identify a polypeptide or nucleic acid sequences as homologous to a known protein or gene. Moreover, with respect to

nuclcotidc sequences, gene specific oligonuclcotidc probes comprising 20-30 contiguous nucleotides may be used in sequence-dependent methods of gene identification (e.g., Southern hybridization) and isolation (e.g., in situ hybridization of bacterial colonies or bacteriophage plaques). In addition, short oligonucleotides of 12-15 bases may be used as amplification primers in PCR in order to obtain a particular nucleic acid fragment comprising the primers. Accordingly, a "substantial portion" of a nucleotides sequence comprises enough of the sequence to specifically identify and/or isolate a nucleic acid fragment comprising the sequence.
The term "percent identity", as known in the art, is a relationship between two or more polypeptide sequences or two or more polynucleotide sequences, as determined by comparing the sequences. In the art, "identity" also means the degree of sequence relatedness between polypeptide or polynucleotide sequences, as the case may be, as determined by the match between strings of such sequences. "Identity" and "similarity" can be readily calculated by known methods, including but not limited to those described in: Computational Molecular Biology (Lesk, A.M., cd.) Oxford l.'niversity Press, New York (1988); Biocomputing: Informatics and Genome Projects (Smith, D. W., cd.) Academic Press, New York (1993); Computer Analysis of Sequence Data, Part I (Griffin, A.M., and Griffin, 11.G., eds.) Humana Press, New Jersey (1994); Sequence in Molecular Biology (von flcinje, G., cd.) Academic Press (1987); and sequence Analysis Primer (Gribskov, M. and Devereux, J., cds.) Stockton Press, New York (1991). Preferred methods to determine identity are designed to give the best match between the sequences tested. Methods to determine identity and similarity arc codified in publicly available computer programs. Sequence alignments and percent identity calculations may be performed using the Megalign program of the LASERGENE bioinformaties computing suite (DNASTAR Inc., Madison, WI). Multiple alignment of the sequences may be performed using the Clustal method of alignment (Higgins and Sharp (1989) CAB1OS. 5:151-153) with the default parameters (GAP PENALTY=10, GAP LENGTH PENALTY- 10). Default parameters for pairwise alignments using the Clustal method may be selected: KTUPLE 1, GAP PENALTY-3, WINDOW=5 and DIAGONALS SAVED=5.
The term "sequence analysis software" refers to any computer algorithm or software program that is useful for the analysis of nucleotide or amino acid sequences. "Sequence analysis software" may be commercially available or independently developed. Typical sequence analysis software will include but is not limited to the GCG suite of programs (Wisconsin Package Version 9.0, Genetics Computer Group (GCG), Madison, WI), BLASTP, BLASTN, BLASTX (Altschul et al., J. Mol. Uiol. 215:403-410 (1990), and DNASTAR (DNASTAR, Inc. 1228 S. Park St. Madison, WI 53715 USA). Within the context of this application it will be understood that where sequence analysis software is used for analysis, that the results of the analysis will be based on the "default values" of the program referenced, unless otherwise specified. As used herein "default values" will mean any set of values or parameters, which originally load with the software when first initialized.
"Synthetic genes" can be assembled from oligonucleotide building blocks that are chemically synthesized using procedures known to those skilled in the art. These building blocks are ligated and annealed to form gene segments that are then anzymatically assembled to construct the entire gene. "Chemically synthesized", as related to a sequence of DNA, means that the component nucleotides were assemble in vitro. Manual chemical synthesis of DNA may be accomplished using well-established procedures, or automated chemical synthesis can be performed using one of a number of commercially available machines. Accordingly, the genes can be tailored for optimal gene expression based on the optimization of nucleotide sequence to reflect the codon bias of the host cell. The skilled artisan appreciates the likelihood of successful gene expression if codon usage is biased towards those codons favored by the host. Determination of preferred codons can be based on a survey of genes derived from the host cell where sequence information is available.
As used herein, two or more individually operable gene regulation systems are said to be "orthogonal" when; a) modulation of each of the given systems by its respective ligand, at a chosen concentration, results in a measurable change in the magnitude of expression of the gene of that

system, and b) the change is statistically significantly different than the change in expression of all other systems simultaneously operable in the cell, tissue, or organism, regardless of the simultaneity or sequentially of the actual modulation. Preferably, modulation of each individually operable gene regulation system effects a change in gene expression at least 2-fold greater than all other operable systems in the cell, tissue, or organism. More preferably, the change is at least 5-fold greater. Even more preferably, the change is at least 10-fold greater. Still more preferably, the change is at least 100 fold greater, liven still more preferably, the change is at least 500-fold greater. Ideally, modulation of each of the given systems by its respective ligand at a chosen concentration results in a measurable change in the magnitude of expression of the gene of that system and no measurable change in expression of all other systems operable in the cell, tissue, or organism. In such cases the multiple inducible gene regulation system is said to be "fully orthogonal". The present invention is useful to search for orthogonal ligands and orthogonal receptor-based gene expression systems such as those described in co-pending U.S. application No. 09/965, 697, which is incorporated herein by reference in its entirety.
GHNH EXPRESSION MODULATION SYSTEM OF THE INVENTION
Applicants have identified herein amino acid residues that are involved in ligand binding to a Group 11 nuclear receptor ligand binding domain that affect the ligand sensitivity and magnitude of induction in an ecdysone receptor-based inducible gene expression system. Applicants describe herein the construction of Group II nuclear receptors that comprise substitution mutations (referred to herein as "substitution mutants") at these critical residual and the demonstration that these substitution mutant nuclear receptors arc useful in methods of modulating gene expression. As presented herein. Applicants' novel substitution mutant nuclear receptors and their use in a nuclear receptor-based inducible gene expression system provides an improved inducible gene expression system in both prokaryotic and eukaryotic host cells in which ligand sensitivity and magnitude of transactivation may be selected as desired, depending upon the application.
Thus, the present invention relates to novel substitution mutant Group H nuclear receptor polynucleolides and polypeptidcs, a nuclear receptor-based inducible gene expression system comprising such mutated Group II nuclear receptor polynucleotides and polypeptides, and methods of modulating the expression of a gene with a host cell using such a nuclear receptor-based inducible gene expression system.
In particular, the present invention relates to a gene expression modulation system comprising at least one gene expression cassette that is capable of being expressed in a host cell comprising a polynuclcotidc that encodes a polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation. Preferably, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is from an ecdysone receptor, a ubiquitous receptor, an orphan receptor 1, a NER-1, a steroid hormone nuclear receptor 1, a retinoid X receptor interacting protein-15, a liver X receptor p, a steroid hormone receptor like protein, a liver X receptor, a liver X receptor a, a farnesoid X receptor, a receptor interacting protein 14, and a larnesol receptor. More preferably, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is from an ecdysone receptor.
In a specific embodiment, the gene expression modulation system comprises a gene expression cassette comprising a polynucleotide that encodes a polypeptide comprising a transactivation domain, a DNA-binding domain that recognizes a response element associated with a gene whose expression is to be modulated; and a Group H nuclear receptor ligand binding domain comprising a substitution mutation. The gene expression modulation system may further comprise a second gene expression cassette comprising: i) a response element recognized by the DNA-binding domain of

the encoded polypeptide of the first gene expression cassette; ii) a promoter that is activated by the transactivation domain of the encoded polypeptide of the first gene expression cassette; and iii) a
gene whose expression is to be modulated.
In another specific embodiment, the gene expression modulation system comprises a gene expression cassette a) a polynucleotide that encodes a polypeptide comprising a transactivation domain, a DNA-binding domain that recognizes a response element associated with a gene whose expression is to be modulated; and a Group H nuclear receptor ligand binding domain comprising a substitution mutation, and b) a second nuclear receptor ligand binding domain, an invertebrate from the group consisting of a vertebrate retinoid X receptor ligand binding domain, an invertebrate retinoid X receptor ligand binding domain, an ultraspiracle protein ligand binding domain, and a ehimeric ligand binding domain comprising two polypeptide fragments, wherein the first polypeptide fragment is from a vertebrate retinoid X receptor ligand binding domain, an invertebrate retinoid X receptor ligand binding domain, or an ultraspiracle protein ligand binding domain, and the second polypeptide fragment is from a different vertebrate retinoid X receptor ligand binding domain, invertebrate retinoid X receptor ligand binding domain, or ultraspiracle protein ligand binding domain. The gene expression modulation system may further comprise a second gene expression cassette comprising: i) a response element recognized by the DNA-binding domain of the encoded polypeptide of the first gene expression cassette: ii) a promoter that is activated by the transactivation domain of the encoded polypeptides of the first gene expression cassette; and iii) a gene whose expression is to be modulated.
In another specific embodiment, the gene expression modulation system comprises a first gene expression cassette comprising a polynucleotide that encodes a first polypeptide comprising a DNA-binding domain that recognizes a response element associated with a gene whose expression is to be modulated and a nuclear receptor ligand binding domain, and a second gene expression cassette comprising a polynucleotide that encodes a second polypeptide comprising a transactivation domain and a nuclear receptor ligand binding domain, wherein one of the nuclear receptor ligand binding domains is a Group H nuclear receptor ligand binding domain comprising a substitution mutation. In a preferred embodiment, the first polypeptide is substantially free of a transactivation domain and the second polypeptide is substantially free of a DNA binding domain.
For purposes of the invention, "substantially free" means that the protein in question does not contain a sufficient sequence of the domain in question to provide activation or binding activity. 1'hc gene expression modulation system may further comprise a third gene expression cassette comprising: i) a response element recognized by the DNA-binding domain of the first gene expression cassette; ii) a promoter that is activated by the transactivation domain of the second polypeptide of the second gene expression cassette; and iii) a gene whose expression is to be modulated.
Wherein when only one nuclear receptor ligand binding domain is a Group H ligand binding domain comprising a substitution mutation, the other nuclear receptor ligand binding domain may be from any other nuclear receptor that forms a dimer with the Group H ligand binding domain comprising the substitution mutation. For example, when the Group H nuclear receptor lingand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain comprising a substitution mutation, the other nuclear receptor ligand binding domain ("partner") may be from an ecdysone receptor, a vertebrate retinoid X receptor (RXR), an invertebrate RXR, an ultraspiracle protein (USP), or a ehimeric nuclear receptor comprising at least two different nuclear receptor ligand binding domain polypeptide fragments selected from the group consisting of a \crtebratc RXR, an invertebrate RXR, and a RXR (see co-pending applications PCT/US01/09050, US 60/294, 814 and US 60/294, 819, incorporated herein by reference in their entirety). The "partner" nuclear receptor ligand binding domain may further comprise a truncation mutation, a deletion mutation, a substitution mutation, or another modification.

Preferably, the vertebrate RXR ligand binding domain is from a human Homo sapiens, mouse Mus museulus, rat Rattus norvegieus, chicken Callus, pig Sus scrofa domestica, frog Xenopus laevis, /ebrallsh Danio rcrio, tunicate Polyandrocarpa misakiensis, or jellyfish tripedalia cysophora RXR.
Preferably, the invertebrate RXR ligand binding domain is from a locust Locusta migratoria RXR polypeptide ("LmRXR"), and ixodid tick Amblyomma americanum RXR homolog 1 ("AmaRXRl"), a ixodid tick Amblyomma americanum RXR homolog 2 ("AmaRXR2"), a fiddler crab Celuca pugilator RXR homolog ("CpRXR"), a beetle Tenebrio molitor RXR homolog ("TmRXR"), a honeybee Apis mellifera RXR homolog ("AmRXR"), an aphid Myzus persicae RXR homolog ("MpRXR"), or a non-Dipteran/non-Lepidopteran RXR homolog.
Preferably, the chimcric RXR ligand binding domain comprises at least two polypeptide fragments selected from the group consisting of a vertebrate species RXR polypeptide fragment, an invertebrate species RXR polypeptide fragment, and a non-Dipteran/non-Lepidopteran invertebrate species RXR homolog polypeptide fragment. A chimeric RXR ligand binding domain for use in the present invention may comprise at least two different species RXR polypeptide fragments, or when the species is the same, the two or more polypeptide fragments may be from two or more different i so forms of the species RXR polypeptide fragment.
In a preferred embodiment, the chimeric RXR ligand binding domain comprises at least one vertebrate species RXR polypeptide fragment and one invertebrate species RXR polypeptide
fragment.
in a more preferred embodiment, the chimcric RXR ligand binding domain comprises at least one vertebrate species RXR polypeptide fragment and one non-Dipteran/non-Lepidopteran invertebrate species RXR homolog polypeptide fragment.
Ina specific embodiment, the gene whose expression is to be modulated is a homologues gene with respect to the host cell. In another specific embodiment, the gene whose expression is to be modulated is a hetcrogonous gene with respect to the host cell.
The ligands for use in the present invention as described below, when combined with the ligand binding domain of the nuclear receptor(s), which is turn are bound to the response element linked to a gene, provide the means for external temporal regulation of expression of the gene. The binding mechanism or the order in which the various components of this invention bind to each other, that is. for example, ligand to ligand binding domain, DNA-binding domain to response element, transactivation domain to promoter, etc., is not critical.
In a specific example, binding of the ligand to the ligand binding domain of a Group H nuclear receptor and its nuclear receptor ligand binding domain partner enables expression or suppression of the gene. This mechanism does not exclude the potential for ligand binding to the Group H nuclear receptor (G11NR) or its partner, and the resulting formation of active homodimer complexes (e.g. GHNR'GllNR or partner+partner). Preferably, one or more of the receptor domain is varied producing a hybrid gene switch. Typically, one or more of the three domains, DBD, LBI), and transactivation domain, may be chosen from a source different than the source of the other domains so that the hybrid genes and the resulting hybrid proteins are optimized in the chosen host cell or organism lor transactivating activity, complementary binding of the ligand, and recognition of a specific response clement. In addition, the response element itselt can be modified or substituted with response elements for other DNA binding protein domains such as the GAL-4 protein from yeast (see Sadowski, et al. (1988), Nature, 335: 563-564) or LexA protein from Escherichia coli (see Brent and Ptashne (1985), Cell, 43: 729-736), or synthetic response elements specific for targeted interactions with proteins designed, modified, and selected for such specific interactions

(sec, for example, Kim, et al. (1997), Proc. Natl. Acad. Sci., USA. 94:3 616-3620) to accommodate hybrid receptors. Another advantage of two-hybrid systems is that they allow choice of a promoter used to drive the gene expression according to a desired end result. Such double control can be particularly important in areas of gene therapy, especially when cytotoxic proteins are produced, because both the timing of expression as well as the cells wherein expression occurs can be controlled. When genes, operably linked to a suitable promoter, are introduced it into the cells of the subject, expression of the exogenous genes is controlled by the presence of the system of this invention. Promoters may be constitutively or inducibly regulated or may be tissue-specific (that is, expressed only in particular type of cells) or specific to certain development stages of the organism.
The ccdysone receptor is a member of nuclear receptor superfamily and classified into subfamily 1, group II (referred to herein as "Group H nuclear receptors"). The members of each group share 40-60% ami no acid identity in the E (ligand binding) domain (Laudet et al., A Unified Nomenclature System for the Nuclear Receptor Subfamily, 1999; Cell 97: 161-163). In addition to the ecdysone receptor (UR), orphan receptor 1 (OR-1), steroid hormone nuclear receptor 1 (NER-1), retinoid X receptor interacting protein -- 15 (RIP-15), liver X receptor [3 (LXRp1), steroid hormone receptor like protein (RI.D-1), liver X receptor (LXR), liver X receptor a (LXRa), farnesoid X receptor (FXR), receptor interacting protein 14 (R1P-14), and famesol receptor (HRR-1).
Applicants have developed a CfficR homology model and have used this homology model together with published Chironomous tetans ecdysone receptor ("CtEcR") homology model (Wurte et al., 2000) to identify critical residues involved in binding to ecdysteroids and non-ecdysteroids. The synthetic non-ecdystcroids, diacylhydrazines, have been shown to bind lepidopteran EcRs with high affinity and induce precocious incomplete molt in these insects (Wing et al., 1988) and several of these compounds are currently marketed as insecticides. The ligand binding cavity or "pocket" or KcRs has evolved to fit the long backbone structures of ecdysteroids such as 20-hydroxyecdysone (20H). The diacylhydrazines have a compact structure compared to ecdysteroids and occupy only the bottom part the EcR binding pocket. This leaves a few critical residues at the top part of the binding pocket that make contact with ecdysteroids but not with non-ecdysteroids such as biscaylhydrazines. Applicants described herein the construction of mutant ecdysone receptors comprising a substitution mutation at these binding pocket residues and have identified several classes of substitution mutant ecdysone receptors with modified ligand binding and transactivation characteristics.
(liven the close relatcdness of ecdysone receptor to other Group H nuclear receptors, Applicants' identified ccdysone receptor ligand binding domain substitution mutations are also expected to work when introduced into the analogous position of the ligand binding domains of other Group H nuclear receptors to modify their ligand binding or ligand sensitivity. One of skill in the art can identify analogous amino acid positions by sequence and function using routine methods in the art such as sequence analysis, analysis of the binding pocket through homology modeling and binding assays. Applicants' novel substitution mutated Group H nuclear receptor polynucleotides and polypeptides are useful in a nuclear receptor-based inducible gene modulation system for various applications including gene therapy, expression of proteins of interest in host cells, production of transgenic organisms, and cell-based assays.
In particular, Applicants describe herein a novel gene expression modulation system comprising a Group 11 receptor ligand binding domain comprising a substitution mutation. This gene expression system may be a "single switch"-based gene expression system in which the transactivation domain, DN'A-binding domain and ligand binding domain are on one encoded polypeptide. Alternatively, the gene expression modulation system may be a "dual switch"- or "two-hybrid"- based gene expression modulation system in which the transactivation domain and DNA-binding domain are located on two different encoded polypeptides. Applicants have demonstrated for the first time that a substitution mutated nuclear receptor can be used as a component of a nuclear receptor-based

induciblc gene expression system to modify ligand binding activity and/or ligand specificity in both prokaryotic and eukaryotic cells. As discussed herein, Applicants' findings are both unexpected
and surprising.
An ccdysone receptor-based gene expression modulation system of the present invention may be cither hctcrodimcric or homodimeric. A functional EcR complex generally refers to a hetero dim eric protein complex consisting of two members of the steroid receptor family, and ecdysonc receptor protein obtained from various insects, and an ultraspiracle (USP) protein or the vertebrate homolog of USP, rctinoid X receptor protein (see Yao, et al. (1993) Nature 366: 476-479; Yao, et al., (1992) Cell 71:63-72). I lowevcr, the complex may also be a homodimer as detailed blow. The functional ecdysteroid receptor complex may also include additional protein(s) such as immunophilins. Additional members of the steroid receptor family of proteins, known as transcriptional factors (such as DHR38 or bctaFTZ-1), may also be ligand dependent or independent partners for EcR, l.'SP, and/or RXR. Additionally, other confactors may be required such as proteins generally known as coactivators (also termed adapters or mediators). These proteins do not bind sequence-specilically to DNA and are not involved in basal transcription. They may exert their effect on transcription activation through various mechanisms, including stimulation of DNA-binding of activators, by affecting chromatin structure, or by mediating activator-initiation complex interactions. Examples of such coactivators include RIP140, TIF1, RAP46/Bag-l, ARA70, SRC-1/NCoA-l, TIF2/GRIP/NCoA-2, ACTR/AIBl/RAC3/pCIP as well as the promiscuous coaclivalor C response element B binding protein, CBR/p300 (for review see Glass et al., Curr. Opin. Cell Biol 9: 222-232, 1997). Also, protein cofactors generally known as corepressors (also known as repressors, silencers, or silencing mediators) may be required to effectively inhibit transcriptional activation in the absence of ligand. These corepressors may interact with the uniganded ecdysonc receptor to silence the activity at the response element. Current evidence suggests that the binding of ligand changes the conformation of the receptor, which results in release of the corepressor and recruitment of the above described coactivators, thereby abolishing their silencing activity. Examples of corepressors include N-CoR and SMRT (for review, see Horwitz et al. Nol Endocrinol. 10: 1167-1177, 1996). These cofactors may either be endogenous within the cell or organism, or may be added exogenously as transgenes to be expressed in either a regulated or unregulated fashion. 1 lomodimcr complexes of the ecdysone receptor protein, USP, or RXR may also be functional under some circumstances.
The ccdysone receptor complex typically includes proteins that are members of the nuclear receptor superfamily wherein all members are generally characterized by the presence of an amino-terminal transaetivation domain, a DNA binding domain ("DBD"), and a ligand binding domain ("LBD") separated from the DBD by a hinge region. As used herein, the term "DNA binding domain" comprises a minimal polypeptide sequence of a DNA binding protein, up to the entire length of a DNA binding protein, as long as the DNA binding domain functions to associate with a particular response element. Members of the nuclear receptor superfamily are also characterized by the presence of four or five domains: A/B, C, D, E, and in some members F (see US patent 4, 981, 784 and Evans, Science 240:889-895 (1988). The "A/B" domain corresponds to the transaetivation domain. "C" corresponds to the DNA binding domain, "D" corresponds to the hinge region, and "F" corresponds to the ligand binding domain. Some members of the family may also have another transactivation domain on the carboxy-tcrminal side of the LBD corresponding to "F".
The DBD is characteri/cd by the presence of two cysteine zinc fingers between which are two ami no acid motifs, the P-box and the D-box, which confer specificity for ecdysone response elements. These domains may be either native, modified, or chimeras of different domains of hcterologous receptor proteins. The EcR receptor, like a subset of the steroid receptor family, also possesses less well-defined regions responsible for heterodimerization properties. Because the domains of nuclear receptors are modular in nature, the LBD, DBD, and transactivation domains may be interchanged,

Gene switch systems are known that incorporate components from the ecdysone receptor complex. However, in these known systems, whenever EcR is used it is associated with native or modified DNA binding domains and transactivation domains on the same molecule. USP or RXR are typically used as silent partners. Applicants have previously shown that when DNA binding domains and transactivation domains arc on the same molecule the background activity in the absence of ligand is high and that such activity is dramatically reduced when DNA binding domains and transactivation domains are on different molecules, that is, no each of two partner of a heterodimcric or homodimcric complex (see PCT/US01/09050).
CiHNE EXPRESSION CASSETTES OF THE INVENTION
The novel nuclear receptor-based inducible gene expression system of the invention comprise at least one gene expression cassette that is capable of being expressed in a host cell, wherein the gene expression cassette comprises a polynuclcotide that encodes a polypeptide comprising a Group 11 nuclear receptor ligand binding domain comprising a substitution mutation. Thus, Applicants' invention also provides novel gene expression cassettes for use in the gene expression system of the invention.
In a specific embodiment, the gene expression cassette that is capable of being expressed in a host cell comprises a polynucleotide that encodes a polypeptide selected from the group consisting of a) a polypeptide comprising a transactivation domain, a DNA-binding domain, and a Group H nuclear receptor ligand and a Group H nuclear receptor ligand binding domain comprising a substitution mutation; b) a polypeptide comprising a DNA-binding domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation; and c) a polypeptide comprising a transactivation domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation.
In another specific embodiment, the present invention provides a gene expression cassette that is capable of being expressed in a host cell, wherein the gene expression cassette comprise a polynuclcotide that encodes a hybrid polypeptide selected from the group consisting of a) a hybrid polypeptide comprising a transactivation domain, a DNA-binding domain, and a Group H nuclear receptor ligand binding domain comprising a substitution mutation; b) a hybrid polypeptide comprising a DNA-binding domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation; and c) a hybrid polypeptide comprising a transactivation domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation.
A hybrid polypeptide according to the invention comprises at least two polypeptide fragments, \\ herein each polypeptide fragment is from a different source, i.e., a different polypeptide, a different nuclear receptor, a different species, etc. The hybrid polypeptide according to the invention may comprise at least two polypeptide domains, wherein each polypeptide domain is from a different source.
In a specific embodiment, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is from an ecdysone receptor, a ubiquitous receptor, an orphan receptor, an orphan receptor l,a NER-1, a steroid hormone nuclear receptor 1, a retinoid X receptor interacting protein- 15. a liver X receptor (J, a steroid hormone receptor like protein, a liver X receptor, a liver X receptor Thus, the present invention also provides a gene expression cassette comprising a polynucleotide that encodes a polypeptide selected from the group consisting of a) a polypeptide comprising a transactivation domain, a DNA-binding domain, and an ecdysone receptor ligand binding domain

comprising a substitution mutation; b) a polypeptide comprising a DNA-binding domain and an ccdysonc receptor ligand binding domain comprising a substitution mutation; and c) a polypeptide comprising a Iransactivation domain and an ecdysone receptor ligand binding domain comprising a substitution mutation. Preferably, the gene expression cassette comprises a polynucleotide that encodes a hybrid polypeptide selected from the group consisting of a) a hybrid polypeptide comprising a transactivation domain, a DNA-binding, and a ecdysone receptor ligand binding domain comprising a substitution mutation; b) a hybrid polypeptide comprising a DNA-binding domain and an ccdysonc receptor ligand binding domain comprising a substitution mutation; and c) a hybrid polypeptide comprising a transactivation domain and an ecdysone receptor ligand binding domain comprising a substitution mutation, wherein the encoded hybrid polypeptide comprises at least two polypeptide fragments, wherein each polypeptide fragments is from a different source.
The cedysone receptor (HcR) ligand binding domain (LBD) may be from an invertebrate EcR, preferably selected from the class Arthropod EcR. Preferably the EcR is selected from the group consisting of a Lepidopteran EcR, a Dipteran EcR, an Orthopteran EcR, a Homopteran EcR and a i Icmiptcran EcR. More preferably, the EcR ligand binding domain for use in the present invention is from a spruce budworm Choristoneura funiderana EcR ("CfEcR"), a beetle Tenebrio molitor EcR O'TmHcR"), a Manduca scxta EcR ("MsEcR"), a Heliothies virescens EcR ("HvEcR"), a midge Chironomus tentans EcR ("CtEcR"), a silk moth Bombyx mori EcR ("BmEcR"), a sequinting bush brown Bicyclus anynana EcR ("BmEcR"), a buckeye Junonia coenia EcR ("JcEcR"), a fruit fly Drosophila mclanogaster EcR ("DmEcR"), a mosquito Aedes aegypti EcR ("AaEcR"), a blowfly l.ucilia capitata ("LcEcR"), a blowfly Lucilia cuprina EcR ("LucEcR"), a blowfly Calliphora vicinia EcR ("CvEcR"), a Mediterranean fruit fly Ceratitis capitata EcR ("CcEcR"), a locust I.ocusta migratoria EcR ("LmEcR"), an aphid Myzus persicae EcR ("MpEcR"), a fiddler crab Celuea pugilator EcR ("CpEcR"), and ixodied tick Amblyomma americanum EcR ("AmaEcR"), a \\hilcfly Bamccia argcntifoli EcR ("BaEcR") or a leafhopper Nephotetix cincticeps EcR ("NcEcR"). Mocr preferably, the LBD is from a CfEcR, a DmEcR, or an AmaEcR.
In a specific embodiment, the LBD is from a truncated EcR polypeptide. The EcR polypeptide truncation results in a deletion of at least 1, 2, 3, 4, 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 7.\ 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150, 155, 160, 165, 170, 175, 180, 185, 190, 195, 200, 205, 210, 215, 220, 225, 230, 235, 240, 245, 250, 255, 260, or 265amino acids. Preferably, the EcR polypeptide truncation results in a deletion of at least a partial polypeptide domain. More preferably, the EcR polypeptide truncation results in a deletion of at least an entire polypeptide domain. In a specific embodiment, the EcR polypeptide truncation results in a deletion of at least an A/B-domain, a C-domain, A D-domain, an F-domain, an A/B/C-domains, an A/B/l/2-C-domains, an A/B/C/D-domains, an A/B/C/D/F—domains, an A/B/F-domains, an A/B/C/F-domains, a partial E domain, or a partial F domain. A combination of several complete and/or partial domain deletions may also be performed.
In a specific embodiment, the Group II nuclear receptor ligand binding domain is encoded by a polynucleotide comprising a codon mutation that results in a substitution of a) amino acid residue 48/51,52,54,92,95,96, 109, 110, 119, 120, 125, 128, 132, 219, 223, 234, or 238 of SEQ ID NO: 1 b) amino acid residues 96 and 119 of SEQ ID NO: 1, c) amino acid residues 110 and 128 of SEQ ID NO: 1, d) amino acid residues 52 and 110 of SEQ ID NO: 1, e) amino acid residues 107, 110, and 127 of SEQ ID NO: 1, or f) amino acid residues 52, 107 and 127 of SEQ ID NO: 1. In another embodiment, the Group 11 nuclear receptor ligand binding domain is encoded by a polynucleotide comprising codon mutations that results in substitution of amino acid residues 107 and 127 and insertion of amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ecdysone receptor.
In another specific embodiment, the Group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising a codon mutation that results in a substitution of a) an asparaginc, argininc, tyrosinc, typtophan, Icucine or lysine residue at a position equivalent to analogous to

amino acid residue 48 of SHQ ID NO: 1, b) a methionine, asparagines or leucine residue at a position equivalent or analogous to amino acid residue 51 of SEQ ID NO: 1, c) a leucine, prolinc, methionine, argininc, tryptophan, glycine, glutamine or glutamic acid residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, d) a tryptophan or threonine at a position equivalent or analogous to amino acid 54 of SEQ ID NO: 1, e) a leucine or glutamic acid at a position equivalent or analogous to amino acid 92 of SEQ ID NO: 1, f) a histidine, methionine or tryptophan residue position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, g) a leucine, serine, glutamic acid or tryptophan residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1, h) a tryptophan, proline, leucine, methionine or asparagine at a position equivalent or analogous to amino acid 109 of SEQ ID NO: 1, i) a glutamic acid, tryptophan or asparagines residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, j) a phenylalanine at a position equivalent or analogous to amino acid 119 of SEQ 1!) NO: 1, k) a tryptophan or methionine at a position equivalent or analogous amino acid 120 of SHQ ID NO: 1, 1) a glutamic acid, proline, leucine, cysteine, tryptophan, glycie, isoleucine, asparagine, serine, valinc or arginine at a position equivalent or analogous to amino acid 125 of SEQ ID NO: 1, in) a phenylalanine at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, n) a methionine, asparagines, glutamic acid or valine at a position equivalent or analogous to amino acid 132 of SEQ ID NO:1, o) an alanine, lysine, tryptophan or tyrosine residue at a position equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1, p) a lysine, arginine or tyrosinc residue at a position equivalent or analogous to amino acid residue 223 or SEQ ID NO: 1, q) a methionine, arginine, tryptophan or isoleucine at a position equivalent or analogous to amino acid 234 of SEQ ID NO: 1, r) a proline, glutamic acid, leucine, methionine or tyrosine at position equivalent or analogous to amino acid 238 of SEQ ID NO: 1, s) a phenylalanine residues at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1 and a threonine at a position equivalent or analogous to amino acid 96 of SEQ ID NO: 1, t) a proline residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1 and a phenylalanine residue at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, u) a valine residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: land a praline residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1, v) an isoleucine residue at aposition equivalent or analogous to amino acid 107 of SEQ ID NO: l,a glutamic acid residue at a position equivalent or analogous to amino acid 127 or SEQ ID NO: 1 and a proline residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1 or w) an isoleucine at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and a valine at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1. In another embodiment, the Group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising codon mutations that results in substitution of an isoleucine residue at a position equivalent or analogous to amino acid 107 of SHQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid 127 of SHQ ID NO: land insertion of a glycine residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ccdysone receptor.
In a specific embodiment, the Group H nuclear ligand binding domain comprising a substitution mutation is an ccdysone receptor ligand binding domain comprising a substitution mutation encoded by a polynucleotide comprising a codon mutation that results in a substitution mutation selected from the group consisting of F48Y, E48W, F48L, F48N, F48R, F48K, I51M, I51N, 151 L, T52M, T52V, T52L, T52E, T52P, T52R, T52W, T52G, T52Q, M54W, M54T, M92L, M92E, R951I, R95M, R95W, V96E, V96W, V96S, V96E, F109W, F109P, F109L, F109M, F109N, A 1101-:, A110N, A110W, N119F, Y120W, Y120M, M125P, M125R, M125E, M125L, M125C, V1125W, M125G, M125I, M125N, M125S, M125V, V128F, L132M, L132N, L132V, L132E, M219K, M219W, M219Y, M219A, L223K, L223R, L223Y, L234M, L234I, L234R, L234W, W238P, W238E, W238Y, W238M, W238L, N119F/V96T, V128F/A110P, T52V/A110P, V 1 071/Y127E/T52V, and V107I/Y127E/A110P substitution mutation of SEQ ID NO: 1. In another specific embodiment, the Group II nuclear receptor ligand binding domain comprising a

substitution mutation is an ecdysone receptor ligand binding domain comprising a substitution mutation encoded by a polynucleotide comprising a codon mutation that results in substitution mutation V1071/Y127R of SEQ ID NO: 1, which further comprises insertion mutation G259 of SEQ
ID NO: 1 V107I/Y127E/G259).
In another specific embodiment, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain polypeptide comprising a substitution mutation encoded by a polynucleotide that hybridizes to a polynucleotide comprising a codon mutation that results in a substation mutation selected from the group consisting of F48Y, 1-48W, F48E, F48N, F48R, F48K, 151M, I51N, 151L, T52M, T52V, T52L, T52E, T52P, T52R, T52W, T52G, T52Q, M54W, M54T, M92L, M92E, R95H, R95M, R95W, V96L, V96W, V96S, V%E, F109W, F109P, F109L, F109M, F109N, A110E, A110N, A110W, N119F, Y120W, Y120M, Y1125P. M125R, M125E, M125L, M125C, M125W, M125G, M125I, M125N, M125S, M125V, V128F, L132M, L132N, L132V, L132E, M219K, M219W, M219Y, M219A, L223K, L223R, L223Y. L234M, L234I, L234R, L234W, W238P, W238E, W238Y, W238M, W238L, Nlll>F/V%T, V128F/A110P, T52V/A110P, V107I/Y127E/T52V, and V107I/Y127E/A110P of SEQ ID NO: 1 under hybridization conditions comprising a hybridization step in less than 500 mM salt and at least 37 degrees Celsius, and a washing step in 2XSSPE at least 63 degrees Celsius. In a preferred embodiment, the hybridization conditions comprise less than 200 mM salt and at least 37 degrees Celsius for the hybridization step. In another preferred embodiment, the hybridization conditions comprise 2XSSPE and 63 degrees Celsius for both the hybridization and washing steps.
In another specific embodiment, the Group H nuclear receptor ligand binding domain comprises a substitution mutation at a position equivalent or analogous to a) amino acid residues 48, 51, 52, 54, 92. 95. 96, 109, 110, 119, 120, 125, 128, 132, 219, 223, 234, or 238 of SEQ ID NO: 1, b) amino acid residues 96 and 1 19 of SEQ ID NO: 1, c) amino acid residues 110 and 128 of SEQ ID NO: 1, d) ammo acid residues 52 and 110 of SEQ ID NO: 1, e) amino acid residues 107, 110,and 127 of SEQ ID NO: 1, or f) amino acid residues 52, 107 and 127 of SEQ ID NO: 1. In another embodiment, the Group H nuclear receptor ligand binding domain comprises substitution mutations that results in substitution mutation at a position equivalent or analogous to amino acid residues 107 and 127 and insertion of amino acid residue 259 of SEQ ID NO: 1. In a preferred embodiment, the Group 11 nuclear receptor ligand binding domain is from an acdysone receptor.
Preferably, the Group FI nuclear receptor ligand binding domain comprises a substation of a) an asparagine, arginine, tyrosine, tryptophan, leucine or lysine residue at a position equivalent to analogous to amino acid residue 48 of SEQ ID NO: 1, b) a methionine, asparagine or leucine residue at a position equivalent or analogous to amino acid residue 51 of SEQ ID NO: 1, c) a leucine, proline, methionine, arginine, tryptophan, glycine, glutamine or glutamic acid residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, d) a tryptophan or threonine residue at a position equivalent or analogous to amino acid 54 of SEQ ID NO: 1, e) a leucine or glutamic acid residue at a position equivalent or analogous to amino acid 92 of SEQ ID NO: 1, i) a histidine, methionine or tryptophan residue at a position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, g) a leucine, serine, glutamic acid or tryptophan residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1, h) a tryptophan, proline, leucine, methionine or asparagine at a position equivalent or analogous to amino acid 109 of SEQ ID NO: 1, i) a glutamic acid, tryptophan or asparagine residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, j) a phenylalanine residue at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1, k) a tryptophan or methionine residue at a position equivalent or analogous to amino acid 120 of SEQ ID NO: 1, 1) a glutamic acid, proline, leucine, cysteine, tryptophan, glycine, isoleucine, asparagine, serine, valine or arginine residue at a position equivalent or analogous to amino acid 125 of SEQ ID NO: 1, m) a phenylalanine residue at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, n) a methionine, asparagine, glutamic acid or valine residue at a position equivalent or analogous to amino acid 132 of SEQ ID NO: 1, o) an alanine, lysine, tryptophan or tyrosine residue at a position

equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1, p) a lysine, arginine or tyrosine residue at a position equivalent or analogous to amino acid residue 223 of SEQ ID NO: 1, q) a methioninc, arginine, tryptophan or isoleucine residue at a position equivalent or analogous to amino acid 234 of SEQ ID NO: 1, r) a proline, glutamic acid, leucine, methionine or tyrosine residue at a position equivalent or analogous to amino acid 238 of SEQ ID NO: 1, s) a phenylalanine residue at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1 and a Ihreonine residues at a position equivalent or analogous to amino acid 96 of SEQ ID NO: 1, t) a proline residue at a position equivalent or analogous to amino acid 110 or SEQ ID NO: 1 and a phenylalanine residue at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, u) a valine residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1 and a proline residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1, v) an isolcueine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic aeid residue at a position equivalent or analogous amino acid 127 of SEQ ID NO: 1 and a glutamic aeid residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1 or \v) an isolcueine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic aeid residue at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and a valine residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1. In another embodiment, the Group 11 nuclear receptor ligand binding domain comprises a substitution of an isoleucine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamie aeid residue at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and insertion of a glycine residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group II nuclear receptor ligand binding domain is from an ecdysone receptor.
In another specific embodiment, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain polypeptide comprising a substitution mutation, wherein the substitution mutation is selected from the group consisting of 1-48Y, F48W, F48L, F48N, F48R, F48K, I51M, I51N, I51L, T52M, T52V, T52L, T52E, T52P, T52R, T52W, T52G, T52Q, M54W, M54T, M92L, M92E, R95H, R95M, R95W, V96L, V96W, V%S, V961-, F109W, F109P, E109L, F109M, F109N, A110E, A110N, A110W, N119F, Y120W, V120M, M125P, M125R, M125Fi, M125L, M125C, M125W, M125G, M125I, M125N, M125S, M125V, V128F, L132M, L132N, L132V, L132E, M219K, M219W, M219Y, M219A, L223K, L223R, L223Y, L234M, L234I, L234R, L234W, W238P, W238E, W238Y, W238M, W238L, Nl 19F/V96T, T52V/A110P, V128F/A110P, V107I/Y127E/T52V, and V107I/Y127E/A110P substitution mutation of SEQ ID NO: 1. In another specific embodiment, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain polypeptide comprising substitution mutation VI07I/Y127E of SEQ ID NO: 1, which further comprises insertion mutation G259 of SEQ ID NO: 1 (V107I/Y127E/G259).
The DNA binding domain can be any DNA binding domain with a known response element, including synthetic and chimeric DNA binding domains, or analogs, combinations, or modifications thereof. Preferably, the DBD is a GAL4 DBD, a LexA DBD, a transcription factor DBD, a Group 11 nuclear receptor member DBD, a steroid/thyroid hormone nuclear receptor superfamily member DBD, or a bacterial LacZ DBD. More preferably, the DBD is an EcR DBD [SEQ ID NO: 4 (polynuceotidc) or SEQ ID NO: 5 (polypeptide)], a GAL4 DBD [SEQ ID NO: 6 (polynucleotide) or SEQ ID NO: 7 (polypeptide)], or a LexA DBD [SEQ ID NO: 8 (polynucleotide) or SEQ ID NO: 9 (polypeptide)].
The transactivation domain (abbreviated "AD" or "TA") may be any Group H nuclear receptor member AD, steroid/thyroid hormone nuclear receptor AD, synthetic or chimeric AD, polygluUuninc AD, basic or acidic amino acid AD, a VP16 AD, a GAL4 AD, an NF-kB AD, a BP64 AD, a B42 acidic activation domain (B42AD), a p65 transactivation domain (p65AD), or an analog, combination, or modification thereof. In a specific embodiment, the AD is a synthetic or

chimeric AD, or is obtained from an EcR, a glucocorticoid receptor, VP16, GAL4, VF-kB, or B42 acidic activation domain AD. Preferably, the AD is an EcR AD [SEQ ID NO: 10 (polynucleotide) or SHQ ID NO: 11 (polypeptide)], a VP16 AD [SEQ ID NO: 12 (polynucleotide) or SEQ ID NO: 13 (polypeptide)], a B42 AD [SEQ ID NO: 14 (polynucleotide) or SEQ ID NO: 15 (polypeptide)], or a p65 AD SEQ ID NO: 16 (polynucleotide) or SEQ ID NO: 17 (polypeptide)].
In a specific embodiment, the gene expression cassette encodes a hybrid polypeptide comprising cither a) a DNA-binding domain encoded by a polynucleotide comprising a nucleic acid sequence of SEQ ID NO: 4, SEQ ID NO: 6, or SEQ ID NO: 8, or b) a transactivation domain encoded by a polynucleotide comprising a nucleic acid sequence of SEQ ID NO: 10, SEQ ID NO: 12, SEQ ID NO: 14, or SEQ LD NO: 16; and a Group II nuclear receptor ligand binding domain comprising a substitution mutation encoded by a polynucleotide according to the invention,. Preferably, the Group 11 nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysonc receptor ligand binding domain comprising a substitution mutation encoded by a polynucleotide according to the invention.
In another specific embodiment, the gene expression cassette encodes a hybrid polypeptide comprising cither a) a DNA-binding domain comrpisign an amino acid sequence of SEQ ID NO: 5, SEQ ID NO: 7, or SEQ ID NO: 9, or b) a transactivation domain comprising an amino acid sequence of SEQ ID NO: 11, SEQ ID NO: 13, SEQ ID NO: 15, or SEQ ID NO: 17; and a Group H nuclear receptor ligand binding domain comprising a substitution mutation according to the invention. Preferably, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain comprising a substitution mutation according to the invention.
The present invention also provides a gene expression cassette comprising: i) a response clement comprising a domain recognized by a polypeptide comprising a DNA binding domain; ii) a promoter that is activated by a polypeptide comprising a transactivation domain; and iii) a gene \vhosc expression is to be modulated.
The response clement ("RE") may be any response element with a known DNA binding domain, or an analog, combination, or modification thereof. A single RE may be employed or multiple REs, cither multiple copies of the same RE or two or more different REs, may be used in the present invention. In a specific embodiment, the RE is an RE from GAL4 ("GAL4RE"), LexA, a Group II nuclear receptor RE, a steroid/thyroid hormone nuclear receptor RE, or a synthetic RE that recogni/es a synthetic DNA binding domain. Preferably, the RE is an ecdysone response element (EcRE) comprising a polynucleotide sequence of SEQ ID NO: 18, a GAL4RE comprising a polynucleotide sequence of SEQ ID NO: 19, or a LexA RE (operon, "op") comprising a polynucleotide sequence of SEQ ID NO: 20 ("2XLexAopRE").
A steroid/thyroid hormone nuclear receptor DNA binding domain, activation or response element according to the invention may be obtained from a steroid/thyroid hormone nuclear receptor selected from the group consisting of thyroid hormone receptor a (TRa), thyroid receptor 1 (c-erbA-1). thyroid hormone receptor p (TIlp), retinoic acid receptor a (RARa), retinoic acid receptor p (RAB(5. HAP), retinoic acid receptor y (RARy), retinoic acid receptor gamma-like (RARD), pcroxisone prolifcrator-activated receptor a (PPARa), peroxisome proliferator-activated receptor p (PPARP), peroxisome proliferator-activated receptor 8 (PPAR8, NUC-1), peroxisome proliferator-activator related receptor (EEAR), peroxisome proliferator-activated y (PPARy), orphan receptor encoded by non-encoding strand of thyroid hormone receptor a (REVERBa), v-erb A related receptor (EAR-1), v-crb related receptor (EAR-1A), y), orphan receptor encoded by non-encoding strand of thyroid hormone receptor P (REVERBP), v-erb related receptor (EAR-1 P), orphan nuclear receptor BD73 (BD73), rev-erbA-related receptor (RVR), zinc finger protein 129 (HZF2), cncdysonc-inducible protein E75 (E75), ecdysone-inducible protein E78 (E78), Drosophila receptor

78 (DR-78), rctinoid-rclatcd orphan receptor a (RORa), retinoid Z receptor a (RZRa), retinoid related orphan receptor p (RORP), retinoid Z receptor P (RZRP), retinoid-related orphan receptor y (RORy). retinoid Z receptor y (RZRy), retinoid-related orphan receptor ('FOR), hormone receptor 3 (11R-3), Drosophila hormone receptor 3 (DHR-3), Manduca hormone receptor (MHR-3), Gallcria hormone receptor 3 (GHR-3), C. clegans nuclear receptor 3 (CNR-3), Choristoneura hormone receptor 3 (CHR-3), C. elegans nuclear receptor 14 (CNR-14), ecdysone receptor (ECR), ubiquitous receptor (UR), orphan nuclear receptor (OR-1), NER-1, receptor-interacting protein 15 (RIP-15), liver X receptor [i (LXRP), steroid hormone receptor like protein (RLD-1), liver X receptor (LXR), liver X receptor a (LXRa), farnesoid X receptor (FXR), receptor-interacting protein 14 (RIP-14), 11RR-1, vitamin D receptor (VDR), orphan nuclear receptor (ONR-1), preganane X receptor (PXR), steroid and xenobiotic receptor (SXR), benzoate X receptor (BXR), nuclear receptor (MB-67), constitutive androstane receptor 1 (CAR-1), constitutive androstane receptor a (CARa), constitutive androstane receptor 2 (CAR-2), constitutive androstane receptor p (CARP), Drosophila hormone receptor 96 (DHR-96), nuclear hormone receptor 1 (NHR-1), hepatocyte nuclear factor 4 (HNF-4), hepatocyte nuclear factor 4G (HNF-4G), hepatocyte nuclear factor 4B (HNF-4B), hepatocyte nuclear factor 4D (HNF-4D, DHNF-4), retinoid X receptor a (RXRa), retinoid X receptor (3 (RXRP), 11-2 region II binding protein (H-2RIIBP), nuclear receptor co-regulator-1 (RCoR-1), retinoid X receptor y (RXRy), Ultraspiracle (USP), 2C1 nuclear receptor, chorion factor 1 (CF-1), testieular receptor 2-11 (TR2-11), testicular receptor 4 (TR4), TAK-1, Drosophila honnone receptor (DIIR78), Tailless (TLL), tailless homolog (TLX), XTLL, chicken ovalbumin upstream promoter transcription factor 1 (COUP-TF1), chicken ovalbumin upstream promoter transcription factor A (COUP-TFA), EAR-3, SVP-44, chicken ovalbumin upstream promoter transcription factor II (COUP-TF1I), chicken ovalbumin upstream promoter transcription factor B (COUP-TFB), ARP-1, SVP-40, SVP, chicken ovalbumin upstream promote transcription factor III (COUP-TFIII), chicken ovalbumin upstream promoter transcription factor G (COUP-TFG), SVP-46, EAR-2, estrogen receptor u (ERa). estrogen receptor P (ERP), estrogen related receptor 1 (ERR1), estrogen related receptor a (ERRa). estrogen related receptor 2 (ERR2), estrogen related receptor P (ERRP). glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), androgcn receptor (AR), nerve growth factor induced gene B (NGFI-B), nuclear receptor similar to Ntir-77 (TRS), N10, Orphan receptor (NUR-77), Human early response gene (NAK-1), Nurr related factor 1 (NURR-1), a human immediate-early response gene (NOT), regenerating liver nuclear receptor 1 (RNR-1), hematopoietic zinc finger 3 (HZF-3), Nur rekated protein-1 (TINOR), Nuclear orphan receptor 1 (NOR-1), NOR1 related receptor (MINOR), Drosophila hormone receptor 38 (DI1R-38), C. elegans nuclear receptor 8 (CNR-8), C48D5, steroidogenic factor 1 (SF1), endo/ephine-like pcptide (ELP), fushi tarazu factor 1 (FTZ-F1), adrenal 4 binding protein (AD4BP), liver receptor homolog (LRH-1), Ftz-Fl-related orphan receptor A (xFFrA), FI/-F1-related orphan receptor B (xFFrB), nuclear receptor related to LRH-1 (FFLR), nuclear receptor related to LRH-1 (PHR), fctoprotcin transcription factor (FTP), gems cell nuclear factor (GCNFM), retinoid receptor-related testis-associated receptor (RTR), knirps (KNI), knirps related (KNRL), Embryonic gonad (EGON), Drosophila gene for ligand dependent nuclear receptor (EAGLE), nuclear receptor similar to trithorax (ODR7), Trithorax, dosage sensitive sex reversal adrenal hypoplasia congenital critical region chromosome X gene (DAX-1), adresnal hypoplasia congenita and hypogonadotropic hypogonadism (AHCH), and short heterodimer partner (SHP).
for purposes of this invention, nuclear receptors and Group H nuclear receptors also include synthetic and chimeric nuclear receptors and Group H nuclear receptors and their homologs.
Genes of interest for use in Applicants' gene expression cassettes may be endogenous genes. Nuclear acid or amino acid sequence information for a desired gene or protein can be located in one or many public access databases, for example, GENBANK, EMBL, Swiss-Port, and PIR, or in many biology-related journal publications. Thus, those skilled in the art have access to nucleic acid sequence information for virtually all known genes. Such information can then be used to construct the desired constructs for the insertion of the gene of interest within the gene expression cassettes used in Applicants' methods described herein.

Examples of genes of interest for use in Applicants' gene expression cassettes include, but are not limited to: genes encoding therapeutically desirable polypeptides or products that may be used to treat a condition, a disease, a disorder, a dysfunction, a genetic defect, such as monoclonal antibodies, cn/ymes, proteases, cytokines, interferons, insulin, erthropoietin, clotting factors, other blood factors or components, viral vectors for gene therapy, virus for vaccines, targets for drug discovery, functional gcnomics, and proteomics analyses and applications, and the like.
1 >O L Y.N IJCLEQTIDS OF THE INVENTION
The novel nuclear receptor-based inducible gene expression system of the invention comprises at least one gene expression cassette comprising a polynucleotide that encodes a Group H nuclear receptor ligand binding domain comprising a substitution mutation. These gene expression cassettes, the polynuclcotides they comprise, and the polypeptides they encode are useful as components of a nuclear receptor-based gene expression system to modulate the expression of a gene within a host cell.
Thus, the present invention provides an isolated polynucleotide that encodes a Group H nuclear receptor ligand binding domain comprising a substitution mutation.
In a specific embodiment, the -Group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 110, 119, 120, 125, 128, 132, 219, 223, 234, or 238 of SEQ ID NO: 1, b) amino acid residues 96 and 119 of SEQ II) NO: 1, c) amino acid residues 110 and 128 of SEQ ID NO: 1, d) amino acid residues 52 and 110 of SEQ ID NO: 1, e) amino acid residues 107, 110, and 127 of SEQ ID NO: 1, or f) amino acid residues 52, 107 and 127 of SEQ ID NO: 1. In another embodiment, the Group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising codon mutations that results in substitution of amino acid residues at positions equivalent or analogous to amino acid residues 107 and 127, and insertion of amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ecdysone receptor.
In another specific embodiment, the Group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising a codon mutation that results in a substitution of a) an asparagine, arginine, tyrosine, tryptophan, leucine or lysine residue at a position equivalent to analogous to amino acid residue 48 of SEQ ID NO: 1, b) a methionine, asparagines or leucine residue at a position equivalent or analogous to amino acid residue 51 of SEQ ID NO: 1, c) a leucine, proline, methionine, arginine, tryptophan, glycine, glutamine or glutamic acid residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1, d) a tryptophan or threonine at a position equivalent or analogous to amino acid 54 of SEQ ID NO: 1, e) a leucine or glutamic acid at a position equivalent or analogous to amino acid 92 of SEQ ID NO: 1, f) a histidine, methionine or tryptophan residue at a position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, g) a leucine, scrine, glutamic acid or tryptophan residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1, h) a tryptophan, proline, leucine, methionine or asparagine at a position equivalent or analogous to amino acid 109 of SEQ ID NO: 1, i) a glutamic acid, tryptophan or asparagines residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: l,j) a phenylalanine at a position equivalent or analogous to

Amino acid 119 of SEQ ID NO: l,k) a tryptophan or methionine at a position equivalent or analogues to amino acid 120 of SEQ ID NO: 1, 1) a glutamic acid, prolinc, leucine, cysteine, tryptophan, glycine, isoleucine, asparagine, serine, valine or arginine at a position equivalent or analogous to amino acid 125 of SEQ ID NO: 1 m) a phcnylalanine at a position equivalent or analogous to amino acid 128 of SEQ ID N0:l, n) a methionine, asparagines, glutamic acid or valine at a position equivalent or analogous to amino acid 132 of SEQ ID NO: 1, o) an alanine , lysine, tryptophan or tyro sine residue at a position equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1, p) a lysine, arginine or tyrosine residue at a position equivalent or analogous to ammo acid residue 223 of SEQ ID NO: 1, q) a methionine , arginine, tryptophan or isoleucine at a position equivalent or analogous to amino acid 234 of SEQ ID NO: 1, r) a prolinc, glutamic acid, leucine, methionine or tyrosine at a position equivalent or analogous to amino acid 238 of SEQ ID NO: 1, s) a phenylalanine at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1 and a threonine at a position equivalent or analogous to amino acid 96 of SEQ ID NO: 1, t) a proline at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1 and a phenylalanine at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, u) a valine residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: land a prolirrc residue at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1, v) an isoleucine at a position equivalent or analogous to amino acid 107of SEQ ID NO: 1 a glutamic acid at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and a valine at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1. in another embodiment, the group H nuclear receptor ligand binding domain is encoded by a polynucleotide comprising codon mutations that results in substitution of an isoleucine residue at a position equivalent or analogous to amino aeid 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and insertion of a glycine residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1, In a preferred embodiment , the Group II nuclear receptor ligand binding domain is from an ecdysone receptor.
[00168) In another specific embodiment , the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain comprising a substitution mutation encoded by a polynucleotide comprising a codon mutation that results in a substitution mutation selected from the group consisting of F48Y, F48W, F48L, F48N, F48R, F48K, I51M, I51N, I51L, T52M, T52V, T52L, T52E, T52P, T52R, T52W, T52G, T52Q, M54W, M54T, M92L, M92E, R95H, R95M, R95W, V96L, V96W, V96S, V96E, F109W, F109P, F109L, F109M, F109N, A110E, ANON, Al 10W, N119F, Y120W, M125P, M125R, M125E, M125L, M125C, M125W, M125G , M1251, M125N, M125S, M125V, V128F, L132M, L132N, L132E, M219K, M219W, M219Y, M219A, L223K, ,L223R, L223Y, L234M, L234I, L234R, L234W, W238P, W238E, W238Y, W238M, W238L, N119F/V96T, V128F/A110P,

nuclear receptor ligand binding domain comprising a substitution mutation according to the invention.
100172) The present invention also relates to an isolated polynucleotide encoding a Group 11 nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation affects ligand binding activity or ligand sensitivity of the Group M nuclear receptor ligand binding domain.
[00173| In another specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation reduces non-ecdysteroid diacylhydra/ine binding activity or non- ecdysteroid diacylhydrazine sensitivity of the Group II nuclear receptor ligand domain, Preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 120, 125, 219, 223, 234, or 238 of SEQ ID NO: 1. More preferably , the isolated polynucleotide comprises a codon mutation that results in a substitution of a) an asparagine residue at a point equivalent or analogous to amino acid residue 48 or 109 of Sl-Q ID NO: 1, b) a leucine residue at a position equivalent or analogous to amino acid residue 51, 92, 96 or 238 of SEQ ID NO: 1, c) a glutamic acid residue at a position equivalent or analogous to amino acid residue 52, 92, 96, 125 or 238 of SEQ ID NO: 1, d) a tryptophan residue at a position equivalent or analogous to amino acid residue 54, 95, 96, 120, 219 or 234 of SEQ ID NO: 1, e) a methionine residue at a position equivalent or analogous to amino acid residue 51, 52, 120, 234 or 238 of SEQ ID NO: 1, !) an alanine residue at a position equivalent or analogous to amino acid residue 219 of S!;Q ID NO: 1, g) a lysine residue at a position equivalent or analogous to amino acid residue 48, 219, or 223 of SEQ ID NO: 1, h) an isoleucine, arginine or tryptophan residue at a position equivalent or analogous to amino acid residue 234 of SEQ ID NO: 1, i) a tyrosine residue at a position equivalent or analogous to amino acid residue 219 or 238 of SEQ ID NO: 1, j) a valine residue at a position equivalent or analogous to amino acid residue 125 of SEQ ID NO: 1, k) a glycine or glutamine residue at a position equivalent or analogous to amino acid residue 52of SEQ ID NO: 1 or 1) an arginine residue at a position equivalent or analogous to amino acid residue 52 or 223 of SEQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation of F48N, F48K, 15IE, 151M T52E, T52M, T52R, T52G, T52Q, M54W, M92L, M92E, R95W, V96W, V96E, V96L, 1-1 09N, Y120M, Y120W, M125E, M125V, M219A, M219K, M219W, M219Y, E223K, L223R, E234M, E234I, E234R, L234W, W238E, W238E, W238Y, W238E, or W238M of SEQ ID NO: 1.
[00174] In addition, the present invention also relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation enhances ligand binding activity or ligand sensitivity of the Group H nuclear receptor ligand binding domain. [00175] In a specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising

a substitution mutation , wherein the substitution mutation generally enhances ccdystcroid binding activity or ecdysteroid sensitivity of the Group H nuclear receptor ligand binding domain. Preferebly the isolated polycleotide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 96 of SEQ ID NO: 1 or b) amino acid residues 96 and 119 of SHQ ID NO: 1. More preferably the isolated polynucleotide comprises a codon mutation that results in a substitution of a) a serine residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1 or b) a threonine residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1 and a phcnylalanine residue at a position equivalent or analogous to amino acid residue ! 19 of SEQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation of V96T or Nl 19F/V96T of SEQ ID NO: 1.
[00176] In another specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation generally enhances non- ecdysteroid diacylhydrazine binding activity or non- ecdysteroid diacylhydra/inc sensitivity of the Group H nuclear receptor ligand binding domain. Preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 48, 52, 54, 109, 110, 125, 132 or 223 of SEQ ID NO: 1 or b) amino acid residues 52 and 110 of SEQ ID NO: 1. More preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of a tyrosine,tryptophan, arginine, or leucine residue at a position equivalent or analogous to amino acid residue 48 of SEQ ID NO: 1, b) a leucine residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, c) a threonine residue at a position equivalent or analogous to amino acid residue 54 of SEQ ID NO: 1, d) methionine residue at a position equivalent or analogous to amino acid residue 109 of SEQ ID NO: 1, e) a praline, glutamic acid or asparagine residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, f) an isoleucine, asparagine or glycine residue at a position equivalent or analogous to amino acid residue 125 of SEQ ID NO: 1, g) a glutamic acid residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1 , h) a tyrosine residue at a position equivalent or analogous to amino acid residue 223 of SEQ ID NO: 1 or i) a valine residue at a position equivalent or analogous to amino acid 52 of SEQ ID NO: 1 and a proline residue residue at a position equivalent or analogous to amino aid 110 of SEQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation of F48Y, F48W, F48L, F48R, T52L, M54T, F109M, A110P, A110K, A110N, M125I, M125G,M125N, L132E, L223Y, or T52V/A1 lOPof SEQ ID
|()0177] In another specific embodiment, the present invention related to an isolated polynuclcotidc encoding a Group II nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation generally enhances non-

ecdysteroid diacylhydra/ine and non- ecdysteroid tetrahydroquinoline sensitivity of the Group H nuclear receptor ligand binding domain . Preferably, the isolated polynuclcotide comprises a codon mutation that results in a substitution of a) amino acid residues at a position equivalent or analogous to amino acid residues 107 and 127 of SEQ ID NO: 1 or b) amino acid residues 107, 110 and 127 of SEQ ID NO: 1. More preferably, the isolated polynucleotide comprises a codon mutation that results in substitution of a) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SEQ ID NO: 1 and a glutamic acid residue at a position equivalent or analogous to amino acid residue 127 of SEQ ID NO: 1 or b) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SEQ ID NO: 1, a proline residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1 and a glutamic acid residue at a position equivalent or analogous to amino acid residue 127 of SEQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation of V107I/Y127E or V107I/Y127E/A110P of SEQ ID NO: 1.
[00178] In another specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation generally enhances both ecdysteroid binding activity or ecdysteroid sensitivity and non- ecdysteroid diacylhydrazine binding activity or non- ecdysteroid diacylhydrazine sensitivity of the Group II ligand binding domain. Preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 109, 132 or W238P of SEQ ID NO: 1, b) amino acid residues 52,107 and 127 of SEQ ID NO: 1 or c) amino acid residues 107 and 127 of SEQ ID NO: 1, and insertion of amino acid 259 of SEQ ID NO: 1. More preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of a) tryptophan residue at a position equivalent or analogous to amino acid residue 109 of SEQ ID NO: 1, b) a valine or methionine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: l,c) a proline residue at a position equivalent or analogous to amino acid residue 238 of SEQ ID NO: 1, d) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid residue 127 of SEQ ID NO: land a valine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1 or e) an isoleucine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid 127 of SEtQ ID NO: 1 and insertion of a glycine residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation of F109W, L132M, L132V, W238P, V107I/Y127E/T52V or V107I/Y127E/259G of SEQ ID NO: 1. In another embodiment, the isolated polynucleotide comprises a codon mutation that results in substitution mutation V107I/Y127R of SEQ ID NO: 1 further comprising insertion mutation G259 of SEQ ID NO: 1(V107I/Y127E/G259).

100179] In another specific embodiment, the present invention relates to an isolated polynucleotidc encoding a Group II nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation generally enhances non-ccdysleroid tetrahydroquinoline binding activity or non-ecdysteroid tctrahyclroquinoline sensitivity of the Group H nuclear receptor ligand binding domain. Preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of a) amino acid residue at a position equivalent or analogous to amino acid residues 1 10 or 128 of SEQ ID NO: 1 or b) amino acid residues at a position equivalent or analogous to amino acid residues 110 and 128 of SEQ ID NO: 1. More preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of a) a tryptophan residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, b) a phenylalanine residue at a position equivalent or analogous to amino acid residue 128 of SEQ ID NO: 1 or c) a proine residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1 and a phenylalanine residue at a position equivalent or analogous to amino acid residue 128 of SKQ ID NO: 1. Even more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation A110W, V128F or V128F/A1 10P of SEQ ID NO: 1.
[0()180| In another specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation differentially responds to non- ecdysteroid diacylhydrazine ligands. Preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to amino acid residues 52, 95, 109,125 or 132 of SEQ ID NO: 1. More preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution of a) a proine residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, b) a histidine or methionine residue at a position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, c) a leucine residue at a position equivalent or analogous to amino acid residue 109 of SEQ ID NO: 1, d) a leucine, tryptophan, arginine, cysteine or praline residue at a position equivalent or analogous to amino acid residue 125 of SEQ ID NO: 1 or e) methionine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1. liven more preferably, the isolated polynucleotide comprises a codon mutation that results in a substitution mutation T52P, T52W, R95H, R95M, F109L, M125L, M125W, M 125R, M125C, M125P OR El32M of SEQ ID NO: 1.
[00181] In another specific embodiment, the present invention relates to an isolated polynucleotide encoding a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation differentially responds to non-ecdysteroid diacylhydrazine ligands. More preferably the isolated polynucleotide comprises a codon mutation that results in a substitution of a) a lysine or arginine residue at a position equivalent or analogous to amino acid residue 48 of SEQ ID NO: 1, b) a glycine, glutaminc, methionine, arginine, or tryptophan residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, c) an isoleucine,

glycinc, asparagine, serinc or valine residue at a position equivalent or analogous to ammo acid residue 125 of SEQ ID NO: 1, d) a glutamic acid residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1, e) a lysinc, tryptophan or tyrosine residue at a position equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1, f) an arginine or tyrosine residue at a position equivalent or analogous to amino acid residue 223 of SEQ ID NO: 1 or g) leucine or methioninc residue at a position equivalent or analogous to amino acid residue 238 of SEQ ID NO: 1. liven more preferably the isolated polynucleotide comprises a codon mutation that results in a substitution mutation F48K, F48R, T52G, T52Q, T52M, T52R, T52W, Ml251, M125G, M125S, M125V, L132E, M219K, M219W, M219Y, L223R, L223Y, W238LorW238MofSEQIDNO: 1.
100182] In addition the present invention relates to an expression vector comprising a polynucleotide according the invention, operatively linked to a transcription regulatory element. Preferably, the polynucleotide encoding a nuclear receptor ligand binding domain comprising a substitution mutation is operatively linked with an expression control sequence permitting expression of the nuclear receptor ligand binding domain in an expression competent host cell. The expression control sequence may comprise a promoter that is functional in the host cell in which expression is desired. The vector may be a plasmid DNA molecule or a viral vector. Preferred viral vectors include rctrovirus, adenovirus, adeno-associated virus, herpes virus, and vaccinia virus. The invention further relates to a replication defective recombinant virus comprising in its genome, the polynucleotide encoding a nuclear receptor ligand binding domain comprising a substitution mutation as described above. Thus, the present invention also relates to an isolated host cell comprising such an expression vector, wherein the transcription regulatory element is operative in the host cell.
[00183] The present invention also relates to an isolated polypeptide encoded by a polynucleotide according to the invention.
I.'OLYPHPT1DES OF THE INVENTION
|0()184| The novel nuclear receptor-based inducible gene expression system of the invention comprises at least one gene expression cassette comprising a polynucleotide that encodes a polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation. Thus, the present invention also provides an isolated polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation according to the invention.
100185] In another specific embodiment, the Group H nuclear receptor ligand binding domain comprises a substitution mutation at a position equivalent or analogous to a) ammo acid residue 48, 51,52, 54,92, 95,96, 109, 110, 119, 120, 125, 128,132,219,223, 234, or 238 of SEQ ID NO: 1, b) amino aid residues 96 and 119 of SEQ ID NO: 1, c) amino acid residues 110 and 128 of SEQ ID NO: l,d) amino acid residues 52 and 110 of SHQ ID NO: 1, e) amino acid residues 107, 110, ans 127 of SEQ ID NO: 1 or f) amino acid residues 52, 107 and 127 of SEQ ID NO: 1. In another embodiment, the Group 11 nuclear receptor ligand binding domain comprises substitution mutation at

positions equivalent or analogous to amino acid residues 107 and 127, and insertion of amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ecdysone receptor.
|0()186] Preferably, the Group II nuclear receptor ligand binding domain comprises a substitution of a) an asparagine, arginine, tyrosine, tryptophan, leucine or lysine residue at a position equivalent or analogous to amino acid residue 48 of SEQ ID NO: 1, b) a mcthioninc, asparagines, or leucine residue at a position equivalent or analogous to amino acid residue 51 of SEQ ID NO: 1, c) a leucine, proline, methionine, arginine, tryptophan, glycine, glutamine, or glutamic acid residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, d) a tryptophan or threonine at a position equivalent or analogous to amino acid 54 of SEQ ID NO: 1, e) a leucine or glutamic acid at a position equivalent or analogous to amino acid 92 of SEQ ID NO: 1, f) a histidine, methionine, or tryptophan residue at a position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, g) a leucine, serine, glutamic acid or tryptophan residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1, h) a tryptophan, proline, leucine, methionine or asparagine residue at a position equivalent or analogous to amino acid 109 of SEQ ID NO: 1, i) a glutamic acid, tryptophan or asparagine residue at a position equivalent or analogous to amino acid residue 1 10 of SEQ ID NO: 1, j) a phenylalanine at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1, k) a tryptophan or methionine, at a position equivalent or analogous to amino acid 120 of SEQ ID NO: 1,1) a glutamic acid, proline, leucine, cystcine, tryptophan, glycine, isoleucine,, asparagine, serine, valine or arginine at a position equivalent or analogous to amino acid 125 of SEQ ID NO: 1, m) a phenylalanine at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, n) a mcthioninc, asparagine, glutamic acid or valine at a position equivalent or analogous to amino acid 132 of SEQ ID NO: 1, o) an alanine, lysine, tryptophan or tyrosine residue at a position equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1, p) a lysine, arginine or tyrosine residue at a position equivalent or analogous to amino acid residue 223 of SEQ ID NO: 1, q) a methionine, arginine, tryptophan or isoleucine at a position equivalent or analogous to amino acid 234 of SEQ ID NO: 1, r) a proline, glutamic acid, leucine, methionine or tyrosine at a position equivalent or analogous to amino acid 238 of SEQ ID NO: 1, s) a phenylalanine at a position equivalent or analogous to amino acid 119 of SEQ ID NO: 1 and a threonine at a position equivalent or analogous to amino acid 96 of SEQ ID NO: 1, t) a proline at a position equivalent or analogous to amino acid 110 of SEQ ID NO: 1 and a phenylalanine at a position equivalent or analogous to amino acid 128 of SEQ ID NO: 1, u) a valine residue at a position residue equivalent or analogous to amino acid 52 of SEQ ID NO: 1 ,v) an isoleucine at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and a proline at a position equivalent or analogous to amino acid 1 10 of SEQ ID NO: 1, or W) an isoleucine at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and a valine at a position equivalent or analogous

to amino acid 52 of SEQ ID NO: 1. In another embodiment, Group H nuclear receptor ligand binding domain comprises a substitution of an isoleucine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and insertion of a glysinc residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ecdysone receptor.
|()0187) In another specific embodiment, the Group H nuclear receptor ligand binding
domain comprising a substitution mutation is an ecdysone receptor ligand binding
domain polypeptide comprising a substitution mutation, wherein the substitution
mutation is selected from the group consisting of F48Y, F48W, F48L, F48N, F48R,
F48K, 151M, 15IN, 151L, T52M, T52V, T52L, T52E, T52P, T52R, T52W, T52G,
T52Q, M54W, M54T, M92L, M92E, M95H, R95H, R95M, R95W, V96L,V96W,
V96S, V96H, F109W, F109P, F109L, F109M.F109N, Al 10E, Al ION, Al 10W, N119F,
YI2UW, Y120M, M125P, M125R, M125E, M125L, M125C, M125W, M125G, M125I,
M125N, M125S, M125V, M128F, L132M, L132N, L132V, L132E, M219K, M219W,
V1219Y, M219A, L223K, L223R, L223Y, L234M, L234I, L234R, L234W, W238P,
W238P, W238E, W238Y, W238M, W238L, N119F/V96T,
V128F/A110P,T52V/A110P, V107I/Y127K/T52V, and V107I/Y127E/A1 10P substitution mutation of SHQ ID NO: 1. In another embodiment, the Group H nuclear receptor ligand binding domain comprising a substitution mutation is an ecdysone receptor ligand binding domain polypeptide comprising a substitution mutation of V107I/Y127E of SEQ ID NO: 1, which further comprises insertion mutation G259 of SEQ ID NO: 1 (107I/Y127E/G259).
[00188] The present invention also provides an isolated polypeptide selected from the group consisting of a) an isolated polypeptide comprising a transactivation domain, a DNA-binding domain, and a Group Ii nuclear receptor ligand binding domain comprising a substitution mutation according to the invention; b) an isolated polypeptide comprising a DNA-binding domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation according to the invention; and c) an isolated polypeptide comprising a transactivation domain and a Group H nuclear receptor ligand binding domain comprising a substitution mutation according to the invention. In a preferred embodiment, the group H nuclear receptor ligand binding domain is from an ecdysone receptor.
(00189] The present invention also provides an isolated hybrid polypeptide selected from the group consisting of a) an isolated hybrid polypeptide comprising a iransaetivation domain, a DNA-binding domain, and a Group H nuclear receptor ligand binding domain comprising a substitution mutation according to the invention; b) an isolated hybrid polypeptide comprising a DNA- binding domain and a Group I-1 nuclear receptor ligand binding domain comprising a substitution mutation according to the invention; and c) an isolated hybrid polypeptide comprising a transactivation domain and a Group II nuclear receptor binding domain comprising a substitution mutation

according to the invention. In a preferred embodiment, the Group H nuclear receptor ligand binding domain is from an ecdysone receptor.
1()0190| The present invention also provides an isolated polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation that affects ligand binding activity or ligand sensitivity of the Group H nuclesr receptor ligand domain.
|00191] In particular, the present invention relates to an isolated Group H nuclear receptor polypeptide comprising a ligand binding domain comprising a substitution mutation that reduces ligand binding activity or ligand sensitivity of the Group H nuclear receptor ligand binding domain.
[00192] In another specific embodiment, the present invention relates to an isolated polypeptide comprising a Group 11 nuclear receptor ligand binding domain comprising a substitution mutation that reduces non-ecdysteroid diacylhydrazine binding activity or non-ecdysteroid diacylhydrazine sensitivity of the Group H nuclear receptor ligand binding domain. Preferably the isolated polypeptide comprises a substitution of an ammo acid residue al a position equivalent or analogous to amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 120, 125, 219, 223, 234, or 238 of SEQ ID NO: 1. More preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) an asparagine residue at a position equivalent or analogous to amino acid residue 48 or 109 of SEQ ID NO: 1, b) a leucine residue at a position equivalent or analogous to amino acid residue 51, 92, 96 or 238 of SEQ ID NO: 1, c) a glutamic acid residue at a position equivalent or analogous to amino acid residue 52, 92, 96, 125 or 238 of SEQ ID NO: 1, d) a tryptophan residue at a position equivalent or analogous to amino acid residue 54, 95, 96, 120, or 219 of SEQ ID NO: 1, e) a methionine residue at a position equivalent or analogous to amino acid residue 51, 52, 120, 234 or 238 of SEQ ID NO: 1, 0 an alaninc residue at a position equivalent or analogous to amino acid residue 219 of SEQ ID NO: 1 g) a lysine residue at a position equivalent or analogous to amino acid residue 48, 219, or 223 of SEQ ID NO: 1, h) an isoleucine, arginine or tryptophan residue at a position equivalent or analogous to amino acid residue 234 of SEQ ID NO: 1, i) a tyrosine residue at a position equivalent or analogous to amino acid residue 219 or 238 of SEQ ID NO: 1 j) an arginine residue at a position equivalent or analogous to amino acid residue 52 or 223 of SEQ ID NO: 1, k) a valine residue at a position equivalent or analogous to amino acid residue 125 of SEQ ID NO: 1 or 1) a glycinc or glutamine residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1. liven more preferably, the isolated polypeptide comprises a codon mutation that results in a substitution mutation of F48N, 15IE, 151M, T52E, T52M, T52R, T52G, T52Q, M54W, M92L, M92E, M95W, V96W, V96E, V96L, F109N, Y120M, Y120W, M125E, M125V, M219A, M219K, M219W, M219Y, L223K, E223R, L234M, L234I, E234W, L234R, W238E, W238L, W238M or W238Y of SEQ ID NO: 1.
|()0193] In addition, the present invention also relates to an isolated polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a

substitution mutation that enhances ligand binding activity or ligand sensitivity of the Group 11 nuclear receptor ligand binding domain.
100194] In a specific embodiment, the present invention relates to an isolated polypeptidc comprising a Group H nuclear rceptor ligand binding domain comprising a substitution mutation that generally enhances ecdysteroid binding activity or ecdysteroid sensitivity of the Group H nuclear receptor ligand binding domain. Preferably, the isolated polypeptide comprises a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 96 of SEQ ID NO: 1 or b) amino acid residues 96 and 119 of SEQ ID NO: 1. More preferably, the isolated polypeptidc comprises a codon mutation that results in a substitution of a) a serinc residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1 or b) a threonine residue at a position equivalent or analogous to amino acid residue 96 of SEQ ID NO: 1 and a phenylalanine residue at a position equivalent or analogous to amino acid residue 119 of SEQ ID NO: 1. Even more preferably, the isolated polypeptidc comprises a codon mutation that results in a substitution mutation of V96T or N1 19F/V96T of SEQ ID NO: 1.
[00195) In another specific embodiment, the present invention relates to an isolated
polypeptidc comprising a Group 11 nuclear receptor ligand binding domain comprising
a substitution mutation that generally enhances diacylhydrazine binding activity or
diacylhydra/inc sensitivity of the Group H nuclear receptor ligand binding domain.
Preferably, the isolated polypeptide comprises a substitution of an amino acid residue
at a position equivalent or analogous to a) amino acid residue 48, 52, 54, 109, 110, 125,
132 or 223 of SEQ ID NO: 1 or b) amino acid residues 52 and 110 of SEQ ID NO: 1.
More preferably, the isolated polypeptide comprises a codon mutation that results in a
substitution of a) a tyrosine, tryptophan, arginine or leucine residue at a position
equivalent or analogous to amino acid residue 48 of SEQ ID NO: 1, b) a leucine residue
at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, d) a
threonine residue at a position equivalent or analogous to amino acid residue 54 of SEQ
ID NO: 1, e) methionine residue at a position equivalent or analogous to amino acid
residue 109 of SEQ ID NO: 1, I) a proline, glutamic acid or asparagine residue at a
position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, g) an
isoleucine, glycine or asparagine residue at a position equivalent or analogous to amino
acid residue 125 of SEQ ID NO: 1, h) a valine residue at a position equivalent or
analogous to amino acid 52 of SEQ ID NO: 1 and a proline residue at a position
equivalent or analogous to amino acid 110 of SEQ ID NO: 1, i) a glutamic acid residue
at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1 or j) a
tyrosine residue at a position equivalent or analogous to amino acid residue 223 of SEQ
ID NO: 1. Even more preferably, the isolated polypeptide comprises a codon mutation
that results in a substitution mutation of F48Y, F48W, F48L, F48R, T52L, M54T,
F109M, A110P, A110E, A110N, M125I, M125G, M125N, L132E, L223Y or
T52V/A110PofSEQIDNO: 1.
[00196) In another specific embodiment, the present invention relates to an isolated
polypeptide comprising a Group H nuclear receptor ligand binding domain comprising

a substitution mutation that generally enhances both ecdysteroid binding activity or ecdysteroid sensitivity and non-ecdysteroid diacylhydrazine binding activity or non-ecdysteroid diacylhydrazine sensitivity of the Group H ligand binding domain. Preferably, the isolated polypeptide comprises a substitution of an amino acid residue at a position equivalent or analogous to a) amino acid residue 109, 132 or W238P of SEQ ID NO: 1, b) amino acid residues 52, 107 and 127 of SEQ ID NO: 1 or c) amino acid residues 107 and 127 of SEQ ID NO: 1 and insertion of amino acid 259 of SEQ ID NO: 1. More preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) tryplophan residue at a position equivalent or analogous to amino acid residue 109 of SHQ ID NO: 1, b)a valine or methionine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1, c) a proline residue at a position equivalent or analogous to amino acid residue 238 of SEQ ID NO: 1, d) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid residue 127 of SEQ ID NO: 1 and a valine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1 or e) an isoleucine residue at a position equivalent or analogous to amino acid 107 of SEQ ID NO: 1, a glutamic acid residue at a position equivalent or analogous to amino acid 127 of SEQ ID NO: 1 and insertion of a glycinc residue at a position equivalent or analogous to amino acid 259 of SEQ ID NO: 1. liven more preferably, the isolated polypeptide comprises a codon mutation that results in a substitution mutation of F109W, L132M, L132V, W238P or V107I/Y127Ii/T52Vof SEQ ID NO: 1. In another embodiment, the isolated polypeptide comprises a codon mutation that results in substitution mutation V107I/Y127E of SEQ ID NO: 1, which further comprises insertion mutation G259 of SEQ ID NO: (VI07I/Y127H/G259).
[00197| In another specific embodiment, the present invention relates to an isolated polypeptide comprising a Group II nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation generally enhances diacylhydra/ine and tetrahydroquinoline binding activity or diacylhydrazine and tctrahydroquinolinc sensitivity of the Group H nuclear receptor ligand binding domain. Preferably, the isolated polypeptide comprises a substitution mutation that results in a substitution of a) amino acid residues at a position equivalent or analogous to amino acid residues 107 and 127 of SEQ ID NO: 1 or b) amino acid residues 107, 110 and 127 of SEQ ID NO: 1. More preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SEQ ID NO: 1 and a glutamic acid residue at a position equivalent or analogous to amino acid residue 127of SEQ ID NO: 1 or b) an isoleucine residue at a position equivalent or analogous to amino acid residue 107 of SHQ ID NO: 1, a proline residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1 and a glutamic acid residue at a position equivalent or analogous to amino acid residue 127 of SEQ ID NO: 1. Even more preferably, the isolated polypeptide comprises a codon mutation that results in a substitution mutation ofV107I/Y127Eor V107I/Y127E/A110P of SEQ ID NO: 1.

[00198| In another specific embodiment, the present invention relates to an isolated
polypeptide comprising a Group II nuclear receptor ligand binding domain comprising
a substitution mutation, wherein the substitution mutation generally enhances non-
ecdysteroid telrahydroquinoline binding activity or non-ecdysteroid
tctrahydroquinoline sensitivity of the Group H nuclear receptor ligand binding domain. Preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) amino acid residue at a position equivalent or analogous to amino acid residues 110 or 128 of SEQ ID NO: 1 or b) amino acid residues at a position equivalent or analogous to amino acid residues 110 and 128 of SEQ ID NO: 1. More preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) a tryptophan residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1, b) a phenylalanine residue at a position equivalent or analogous to amino acid residue 128 of SEQ ID NO: 1 or c) a proline residue at a position equivalent or analogous to amino acid residue 110 of SEQ ID NO: 1 and a phenylalanine residue at a position equivalent or analogous to amino acid residue 128 of SEQ ID NO: 1. Even more preferably, the isolated polypeptide comprises a codon mutation that results in a substitution mutation Al 10W, V128F or V128F/A110P of SEQ ID NO: 1. [0()199| In another specific embodiment, the present invention relates to an isolated polypeptide comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation differentially responds to non-ecdysteroid diacylhydra/ine ligands. Preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of an amino acid residue at a position equivalent or analogous to amino acid residues 52, 95, 109, 125 or 132 of SFiQ ID NO: 1. More preferably, the isolated polypeptide comprises a codon mutation that results in a substitution of a) a proline residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, b) a histidine or methionine residue at a position equivalent or analogous to amino acid residue 95 of SEQ ID NO: 1, c) a leucine residue at a position equivalent or analogous to amino acid residue 109of SEQ ID NO: 1, d) a leucine, tryptophan, arginine, cysteine or proline residue at a position equivalent or analogous to amino acid residue 125 of SEQ ID NO: 1 or e) a methionine residue at a position equivalent or analogous to amino acid residue 132 of SEQ ID NO: 1. Even more preferably, the isolated polypeptide comprises a codon mutation that results in a substitution mutation T52P, R95H, R95M, , F109L, M125L,M125W, M125C, M125P orL132M of SEQ DI NO: 1.
[002001 In another specific embodiment, the present invention relates to an isolated polypeplidc comprising a Group H nuclear receptor ligand binding domain comprising a substitution mutation, wherein the substitution mutation differentially responds to non-ecdysteroid diacylhydrazine ligands. More preferably the isolated polypeptide comprises a codon mutation that results in a substitution of a) a lysine or arginine residue at a position equivalent or analogous to amino acid residue 48 of SEQ ID NO: 1, b) a glycine, glutamine, methionine, arginine or tryptophan residue at a position equivalent or analogous to amino acid residue 52 of SEQ ID NO: 1, c) an isoleucine, glycine, asparagines, serine or valine residue at a position equivalent or analogous to

host cell a ligand; whereby upon introduction of the ligand into the host, expression of the gene is modulated.
|00205] Genes of interest for expression in a host cell using Applicants' methods may be endogenous genes or heterologous genes. Nucleic acid or amino acid sequence information for a desired gene or protein can be located in one of many public access databases, for example, GENBANK, EMBL, Swiss-prot, and PIR, or in many biology related journal publication. Thus, those, skilled in the art have access to nucleic acid sequence information for virtually all known genes. Such information can then be used to construct the desired constructs for the insertion of the gene of interest within the gene expression cassettes used in Applicants' methods described herein. |0()2()6] Examples of genes of interest for expression in a host cell using Applicants' methods include, but are not limited to: antigens produced in plants as vaccines, enxymes like alpha-amylase, phytase, glucanes, xylase and xylanse, genes for resistance against insects, nematodes, fungi, bacteria, viruses, and abiotic stresses, nutraceuticals, Pharmaceuticals, vitamins, genes for modifying amino acid content, herbicide resistance, cold, drought, and heat tolerance, industrial products, oils, protein, carbohydrates, antioxidants, male sterile plants, flowers, fuels, other output traits, genes encoding therapeutically desirable polypeptides or products that may be used to treat a condition, a disease, a disorder, a dysfunction, a genetic defect, such as monoclonal antibodies, enxymes, proteases, cytokines, interferons, insulin, erthropoietin, clotting (actors, other blood factors or components, viral vectors for gene therapy, virus for vaccines, targets for drug discovery, functional genomics, and proteomics analyses and applications, and the like.
[002071 Acceptable ligands are any that modulate expression of the gene when binding of the i)DNA binding domain of the gene expression system according to the invention to the response element in the presence of the ligand results in activation or suppression of expression of the genes. Preferred ligands include an ecdysteroid such as ecdysonc, 20-hydroxyecdysone, ponasterone A, muristerone A, and the like, 9-cis-retinoic acid, synthetic analogs of rctinoic acid, N, N'-diacylhydrazines such as those disclosed in U.. S. Patents No. 6,013,836; 5,117,057; 5,530,028; 5,378,726; and U.S. Patent Application Nos. 10/775,883 and 10/787,906; dibenzoylalkyl cyanohydrazines such as those described in European Application No. 461,809; N-alkyl-N, N' -diaroylhydrazines such as those disclosed in U.S. Patent No. 5,225,443; N-acyl«N such as those disclosed in European Application No, 234,994; N.aroyhN.alkylNN'.aroylhydrazines such as those described in U. S. Patent No. 4,985,461; tetrahydroquinolines such as those d in Intema Application No. PC'l 1US03100915; each of which is incorporated herein by reference and other sin materials including 3,5di-lert hydroxy-N-isohiityl-benxainide, 8 oxysterols, 22(R) hydroxycholestcrol, 24(S) hydroxycholesterol, 25epoxycholcstcrol, 109013 7, 5.alpha.6 3 .sulfale (ECI IS), 7 sulfate, farnesol, bile acids, 1,1 biphosphonate esters, Juvenile hormone 11 and the like,

[00208 In a preferred embodiment, the ligand for use in Applicants' method of modulating expression of gene is a compound of the formulas:
(Figure Remove)
wherein
H is a branched (CrC]2)alkyl or branched (C4-Ci2)alkyl containing a tertiary carbon or a
cyano(CYCi2)alkyl containing a tertiary carbon;
R1 is II, Me I«l, i-Pr, F, formyl, CF3, CHF2, CHC12, CH2F, CH2C1, CH2OH, CH2OMc,
CII.CN, C°CI1, 1-propynyl, 2-propynyl, vinyl, OH, OMe OEt, cyclopropyl, CF2CF3,
CI1 CIICN, allyl, azido, SCN, or SCHF2;
R' is II, Me, Et, n-Pr, i-Pr, formyl, CF3, CHF2, CHC12, CH2F, CH2C1, CH2OH, CIIpOMe, CH2CN, CN, C°CH, 1-propynyl, 2-propynyl, vinyl, Ac, F, d, OH, OMe, OHl, 0-n-Pr, OAc, NMe2, Net2, SMe, Set, SOCF3, OCF2CF2H, COEt, cyclopropyl, C1-':,C1-3CII CHCN, allyl, azido, OCF3, OCHF3, O-i-Pr, SCN, SCHF2, SOMc, NII-CN, or joined with R3 and the phenyl carbons to which R2 and R3 are attached to form an ethylenedioxy, a dihydrofuryl ring with the oxygen adjacent to a phenyl carbon, or a dihydropyryl ring with the oxygen adjacent to a phenyl carbon;
R"' is 11, lit, or joined with R2 and the phenyl carbons to which R2 and R3 are attached to form an ethylenedioxy, a dihydrofuryl ring with the oxygen adjacent to a phenyl carbon, or a dihydropyryl ring with the oxygen adjacent to a phenyl carbon;
R•', R5, and R6 are independently H, Me, Et, F, Fl, Br, formyl, CF3, CHF2 CHC12 CH2F, ClhCl, ClhOH, CN, C°CI1, 1-propynyl, 2-propynyl, vinyl, OMe, OEt, SMe, or Set.
[002()9J In another preferred embodiment, the ligand for use in Applicants' method of modulating expression of gene is a compound of the formula:

(Figure Remove)





wherein;



(Table Remove)

(002101 In another preferred embodiment, the ligand for use in Applicants' method of modulating expression of gene is a compound of the formula:

(Figure Remove)



wherein:

Rl

RZ

R3

R4



H
JJ -CHjCHi 2
" 3 | -CHiCH!

H
-OCHiCHjO

•ClCHi
-OCHs

H
-CH

-OCH3
-OCH

[00211| In a further preferred embodiment, the ligand for use in Applicants' method of modulating expression of gene is a compound of the formula:
ftz
(Figure Remove)


wherein:


(Table Remove)

[00212] In another preferred embodiment, the ligand for use in Applicants' method of modulating expression of gene is an ecdysone, 20-hydroxyecdysone, ponasterone A, muristcronc A, an oxysterol, a 22(R) hydroxycholesterol, 24(s) hydroxycholesterol, 25-cpoxycholesterol, T0901317, 5-alpha-6-alpha-epoxycholesterol-3 sulfate (ECHS), 7-kctocholcsterol-3-sulfate (ECHS), 7-ketocholesterol-3-sulphate, farnesol, bile acids, 1,1 -biphosphonate ester, or juvenile hormone III.
100213) In another preferred embodiment, a second ligand may be used in addition to the first ligand discussed above in applicant' method of modulating expression of a gene. Preferably, this second ligand is 9-cis-retinoic acid or a synthetic analog of
rctinoic acid.
11OS'I' CJLI.LS AND NON-HUMAN ORGANISMS OF THE INVENTION
|00214] As described above, the gene expression modulation system of the present invention may be used to modulate gene expression in a host cell. Expression in transgcnic host cells may be useful for the expression of various genes of interest. Applicant's invention provides for modulation of gene expression in prokaryotic and cukaryotic host cells. Expression in transgenic host cells is useful for the expression of various polypeptide of interest including but not limited to antigens produced in plants as vaccines, enzymes like alpha-amylase, phytase, glucanes, xylase and xylanse, genes for resistance against insects, nematodes, fungi, bacteria, viruses, and abiotic stresses, antigens, nutraceuticals, Pharmaceuticals, vitamins, genes for modifying amino acid content, herbicide resistance, cold, drought, and heat tolerance, industrial products, oils, protein, carbohydrates, antioxidants, male sterile plants, flowers, fuels, other output traits, therapeutic polypeptides, pathway intermediates; male sterile plants, flowers, fuels, other output traits, therapeutic polypeptides, pathway intermediates; for the modulation of pathways already existing in the host for the synthesis of new products heretofore not possible using the host; cell based assays; functional genomics assays, biotherapcutic protein production, proteomics assays, and the like. Additionally the gene products may useful for concerning higher growth yields of the host or for enabling an alternative growth mode to be utilized.
|0()215] Thus, Applicants' invention provides an isolated host cell comprising a gene expression system according to the invention. The present invention also provides an isolated host cell comprising a gene expression cassette according to the invention. Applicants' invention also provides an isolated host cell comprising a polynucleotide or a polypeptidc according to the invention. The present invention also relates to a host cell transfccted with an expression vector according to the invention. The host cell may be a bacterial cell, a fungal cell, a nematode cell, an insect cell, a fish cell, a plant cell, an avian cell, an animal cell, or a mammalian cell. In still another embodiment, the

invention relates to a method for producing a nuclear receptor ligand binding domain comprising a substitution mutation, wherein the method comprises culturing the host cell as described above in culture medium under conditions permitting expression of a polynucleotidc encoding the nuclear receptor ligand binding domain comprising a substitution mutation, and isolating the nuclear receptor ligand binding domain comprising a substitution mutation from the culture.
(00216] In a specific embodiment, the isolated host cell is a prokaryotic host cell or a cukaryotic host cell. In another specific embodiment, the isolated host cell is an invertebrate host cell or a vertebrate host cell. Preferably, the host cell is selected from the group consisting of a bacterial cell, a fungal cell, a yeast cell, nematode cell, an insect cell, a fish cell, a plant cell, an avian cell, an animal cell, and a mammalian cell. More preferably, the host cell is a yeast cell, a nematode cell, an insect cell, a plant cell, a xebralish cell, a chicken cell, a hamster cell, a mouse cell, a rat cell, a rabbit cell, a cat cell, a dog cell, a bovine cell, a goat cell, a cow cell, a pig cell, a horse cell, a sheep cell, a simian cell, a monkey cell, a chimpanzee cell, or a human cell. Examples of preferred host cells include, but are not limited to, fungal or yeast species such as Aspergillus. Trichoderma, Saccharomyces, Pichia, Candida, Hansenula, or bacterial species such as those in the genera Sycechsocystis, Synechococcus, Salmonella, Bacillus, Acintobacter,; Rhodococcus, Streptomyces, EscherieJzi Pseudornonas, Methyl omonas, mcthylobacter, Alcaligencs, Svnechocystis Anabaena, Thiobacillus, Methanobactcriu,n and Kiebsiella; plant species selected from the group consisting of an apple, Arabidopsis. bajra, banana, barley, beans, beet, blackgTarn, chickpea, chili, cucumbor, eggplant, favabean, maize, melon, millet, niungbean, oat, okra, Panzcwn, papaya, peanut, pea, pepper, pigeonpea, pineapple, Phaseolus, potato, pumpkin, rice, sorghum, soybean, squash, sugarcane, sugarbeet., sunflower, sweet potato, tea, tomato, tobacco, watermelon, and wheat; animal; and mammalian host cells.
[002171 In a specific embodiment, the host cell is a yeast cell selected from the group consisting of a Saccharomyces, a Pichia, and a Candida host cell. [002181 In another specific embodiment, the host cell is a Caenorhabdus elegans nematode cell.
[00219| another specific embodiment, the host cell is an insect cell. [00220] In another specific embodiment, the host cell is a plant cell selected from the group consisting of an apple, Arabidopsis, bajra, banana, barley, beans, beet, hlackgram, chickpea, chili, cucumber, eggplant,favabean, maize, melon, millet, mungbcan, oat, okra, Panicum, papaya, peanut, pea, pepper, pigeonpea, pineapple, Phaseolus, potato, pumpkin, rice, sorghum, soybean, squash, sugarcane, sugarbeet, sunflower, sweet potato, tea, tomato, tobacco, watermelon, and wheat cell. [002211 In another specific embodiment, the host cell is a zebrafish cell. [{)0222[ In another specific embodiment, the host cell is a chicken cell. |00223| In another specific embodiment, the host cell is a mammalian cell selected from the group consisting of a hamster cell, a mouse cell, a rat cell, a rabbit cell, a cat

cell, a dog cell, a bovine cell, a goat cell, a cow cell, a pig cell, a horse cell, a sheep cell, a monkey cell, a chimpanzee cell, and a human cell.
00224] Host cell transformation is well known in the art and may be achieved by a variety of methods including but not limited to elcctroporation, viral infection, Plasmid/vcctor transfection, non-viral vector mediated transfection, Agrobacterium-mediated transformation, particle bombardment, and the like. Expression of desired gene products involves culturing the transformed host cells under suitable conditions and inducing expression of the transformed gene. Culture conditions and gene expression protocols in prokaryotic and eukaryotic cells are well known in the art (see General Methods section of Examples). Cells may be harvested and the gene products isolated according to protocols specific for the gene product
|00225| In addition, a host cell may be chosen which modulates the expression of the inserted polynuclcotide, or modifies and processes the polypeptide product in t specific fashion desired. Different host cells have characteristic and specific mechanisms for the Iranslational and post- translational processing and modification [e.g., glycosylation, cleavage (e.g., of signal sequence)] of proteins. Appropriate cell lines or host systems can he chosen to ensure the desired modification and processing of the foreign protein expressed. For example, expression in a bacterial system can be used to produce a non-glycosylatcd core protein product. However, a polypeptide expressed in bacteria may not be properly folded. Expression in yeast can produce a glycosylated product. Expression in eukaryotic cells can increase the likelihood of "native" glycosylation and folding of a heterologous protein. Moreover, expression in mammalian cells can provide a tool for reconstituting, or constituting, the polypeptide's activity. Furthermore, different vector/host expression systems may affect processing reactions, such as protcolytic cleavages, to a different extent.
[00226] Applicants' invention also relates to a non-human organism comprising an isolated host cell according to the invention. In a specific embodiment, the non-human organism is a prokaryotic organism or a eukaryotic organism. In another specific embodiment, the non-human organism is an invertebrate organism or a vertebrate organism.
[00227] Preferably, the non-human organism is selected from the group consisting of a bacterium, a fungus, yeast, a nematode, an insect, a fish, a plant, a bird, an animal, and a mammal. More preferably, the non-human organism is a yeast, a nematode, an insect, a plant, a xebrafish, a chicken, a hamster, a
mouse, a rat, a rabbit, a cat, a dog, a bovine, a goat, a cow, a pig, a horse, a sheep, a simian, a monkey, or a chimpanzee.
[00228] In a specific embodiment, the non-hun-ian organism is a yeast selected from the group consisting of Saccharomyces, Pichia, and Candida.
[00229] In another specific embodiment, the non-human organism is a Caenorhabdus elegmis nematode.

[00230] In another specific embodiment, the non-human organism is a plant selected from the group consisting of an apple, Arabidopsis, bajra, banana, barley, beans, beet, hlackgrain, chickpea, chili, cucumber, eggplant, favabean, maize, melon, millet, mungbcan, oat, okra, Panicuin, papaya, peanut, pea, pepper, pigeonpea, pineapple, Phaseolus, potato, pumpkin, rice, sorghum, soybean, squash, sugarcane, sugarbeet, sunflower sweet potato, tea, tomato, tobacco, watermelon, and wheat [00231] In another specific embodiment, the non-human organism is a Mus musculus mouse.
MHASURING GENE EXPRESSION/TRANSCRIPTION
[00232] One useful measurement of Applicants' methods of the invention is that of the ranscriptional state of the cell including the identities and abundances of RNA, preferably mRNA species. Such measurements are conveniently conducted by measuring cDNA abundances by any of several existing gene expression technologies. [00233] Nucleic acid array technology is a useful technique for determining differential mRNA expression. Such technology includes, for example, oligonucleotide chips and DNA microarrays. These techniques rely on DNA fragments or oligonucleotides which correspond to different genes or cDNAs which arc immobilized on a solid support and hybridi7ed to probes prepared from total mRNA pools extracted from cells, tissues, or whole organisms and converted to cDNA. Oligonucleotide chips are arrays of oligonucleotides synthcsi/ed on a substrate using photolithographic techniques. Chips have been produced which can analyze for up to 1700 ger DNA microarrays are arrays of DNA samples, typically PCR products that are roboticully printed onto a microscope slide. Each gene is analyzed by a full or partial-length target DNA sequence. Microarrays with up to 10,000 genes are now routinely prepared commercially. The primary difference between these two techniques is that oligonucleotide chips typicaly utilize 25-mer oligonucicotidcs which allow fractionation of short DNA molecules whereas the larger DNA targets of microarrays, approximately 1000 base pairs, may provide more sensitivity in fractionating complex DNA mixtures. [00234] Another useful measurement of Applicants' methods of the invention is that of determining the translation state of the cell by measuring the abundances of the constituent protein species present in the cell using processes well known in the art. [00235] Where identification of genes associated with various physiological functions is desired, an assay may be employed in which changes in such functions as cell growth, apoptosis, senescence, differentiation, adhesion, binding to a specific molecules, binding to another cdl, cellular organization, organogenesis, intracellular transport, transport facilitation, energy conversion,, metabolism, myogenesis, ncurogcnesis. and/or hematopoiesis is measured.
[00236] In addition, selectable marker or reporter gene expression may be used to measure gene expression modulation using Applicants' invention.

100237) Other methods to detect the products of gene expression are well known in the art and include Southern blots (DMA detection), dot or slot blots (DNA, RNA), northern blots (UNA) RT-PCR (RNA).
western blots (polypeptide detection), and Elisa polypeptide analyses. Although less preferred, labeled proteins can be used to detect a particular nucleic acid sequence to which it hybridizes. |00238| In some cases it is necessary to amplify the amount of a nucleic acid sequence. This may be carried out using one or more of a number of suitable methods including, for example, polymerase cluun reaction ("PCR"), ligase chain reaction ("LCR"), strand displacement amplification ("SDA"), transcription-based amplification, and the like. PCR is carried out in accordance with known techniques in which, for example, a nucleic acid sample is treated in the presence of a heat stable DNA polymerase, under hybridizing conditions, with one pair of oligonucleotide primers, with one prim. hybridizing to one strand (template) of the specific sequence to be detected. The primers arc sufficiently complementary to each template strand of the specific sequence to hybridize therewith. An extension product of each primer is synthesized and is complementary to the nucleic acid template strand 10 which it hybridized. The extension product synthesized from each primer can also serve as a template for further synthesis of extension on products using the same primers. Following a sufficient number of rounds of synthesis of extension products, the sample may be analyzed as described above to assess whether the sequence or sequences to be dc are present.
SCREENING ASSAYS
1 00 239 1 The present invention also relates to methods of screening for a compound that induces or represses transactivation of a nuclear receptor ligand binding domain comprising a substitution mutation in a cell by contacting a nuclear receptor ligand binding domain with a candidate molecule and detecting reporter gene activity in the presence of the ligand. Candidate compounds may be cither agonists or antagonists of the nuclear receptor ligand binding domain. In a preferred embodiment, the nuclear receptor ligand binding domain is expressed from a polynucleotide in the cell and the iransactivation activity (i.e., expression or repression of a reporter gene) or compound binding activity is measured.
|00240] Accordingly, in addition to rational design of agonists and antagonists based on the structure of a nuclear receptor ligand binding domain, the present invention contemplates an alternative method for identifying specific ligands of a nuclear receptor ligand binding domain using various screening assays known in the art.
[0024 1] Any screening technique known in the art can be used to screen for Group H nuclear receptor
ligtmd binding domain agonists or antagonists. For example, a suitable cell line comprising a nuclear
receptor-based gene expression system according to the invention can be transfccted with a gene
expression cassette encoding a marker gene operatively linked to an inducible or repressiblc promoter.
The transfected cells are then exposed to a test solution comprising a candidate agonist or antagonist
compound, and then assayed for marker gene expression or repression. The presence of more marker
gene expression relative to control cells not exposed to the test solution is an indication of the presence
of an agonist compound in the test solution. Conversely, the presence of less marker gene expression relative to
control cells not exposed to the test solution is an indication of the presence of an antagonist.

compound in the test solution.
The present invention contemplates screens for small molecule ligands or ligand analogs and mimics, as well as screens for natural ligands that bind to and agonize or antagonize a Group H nuclear receptor ligand binding domain according to the invention in vivo. For example, natural products libraries can be screened using assays of the invention for molecules that agonize or antagonize nuclear receptor-based gene expression system activity.
Identification and screening of antagonists is further facilitated by determining structural features of the protein, e.g., using X-ray crystallography, neutron diffraction, nuclear magnetic resonance speetromctry, and other techniques for structure determination. These techniques provide for the rational design or identification of agonists and antagonists.
Another approach uses recombinant bacteriophage to produce large libraries. Using the "phage method" [Scott and Smith, 1990, Science 249:386-390 (1990); Cwirla, et al., Proc. Natl Acad. Sci., 87: 6378-6382 (1990); Devlin et al., Science, 249:404-406 (1990)], very large libraries can be constructed (106-108 chemical entities). A second approach uses primarily chemical methods, of which the. Geyscn method [Geysen et al., Molecular Immunology 23:709-715 (1986); Geysen ct al. j. Immunologic Method 102:259-274 (1987)] and the method of Fodor et al. [Science 251:767-773 (1991)) are examples. Furka ct al. [14th International Congress of Biochemistry, Volume 5, Abstract 1;R:013 (1988); Furka, Int. J. Peptide Protein Res. 37:487-493 (1991], Houghton [U.S. Patent No. 4, 631. 211, issued December 1986] and Rutter et al. [U.S. Patent No. 5, 010, 175, issued April 23, 1991 describe methods to produce a mixture of peptides that can be tested as agonists or antagonists.
In another aspect synthetic libraries [Needels et al., Proc. Natl. Acad. Sci. USA 90:10700-4 (1993); Ohlmeyer et al., Proc,. Natl Acad. Sci. USA 90: 10922-10926 (1993); Lam et al., International Patent Publication No. WO92/00252; Kocis et al., International Patent Publication No. WO 0428028. each of which is incorporated herein by reference in its entirety], and the like can be used to screen for candidate ligands according to the present invention.
The screening can be performed with recombinant cells that express a nuclear receptor ligand binding domain according to the invention, or alternatively, using purified protein, e.g., produced recombinantly, as described above. For example, labeled, soluble nuclear receptor ligand binding domains can be used to screen libraries, as described in the foregoing references.
In one embodiment, a Group 11 nuclear receptor ligand binding domain according to the invention may be directly labeled. In another embodiment, a labeled secondary reagent maybe used to detect binding of a nuclear receptor ligand binding domain of the invention to a molecule of interest, e.g., a molecule attached to a solid phase support. Binding may be detected by in situ formation of a chromophorc by an enzyme label. Suitable enzymes include, but are not limited to, alkaline phosphatase and horseradish peroxidase. In a further embodiment, a two-color assay, using two chromogenic substrates with two enzyme labels on different acceptor molecules of interest, may be used. Cross-reactive and singly reactive ligands may be identified with a two-color assay.
Other labels for use in the invention include colored latex beads, magnetic beads, fluorescent labels (e.g., iluorescene isothiocyanate (FITC), phycoerythrin (PE), Texas red (TR), rhodamine, free or chelated lanthanide series salts, especially Eu34, to name a few fluorophores), chemiluminescent molecules, radioisotopcs, or magnetic resonance imaging labels. Two-color assays may be performed with two or more colored latex beads, or fluorophores that emit at different wavelengths. Labeled molecules or cells may be detected visually or by mechanical/optical means. Mechanical/optical means include fluorescence activated sorting, i.e., analogous to FACS, and mieromanipulator removal means.

The present invention may be better understood by reference to the following non-limiting examples, which arc provided as exemplary of the invention.
EXAMPLES
Applicants have developed a CfEcR homology model and have used this homology model together with a published Chironomous tetans ecdysone receptor ("CtEcR") homology model (Wurtz et al., 2000) to identify critical residues involved in binding to ecdysteroids and non-ecdysteroids. The synthetic non-steroid, diacylhydrazincs, have been shown to bind lepidopteran EcRs with high affinity and induce precocious incomplete molt in these insects (Wing et al., 1988) and several of these compounds are currently marketed as insecticides. The ligand binding cavity of EcRs has evolved to fit the long backbone structures of ecdysteroids such as 20E. The diacylhydrazines have a compact structure compared to ecdysteroids and occupy only the bottom part of the EcR binding pocket. This leaves a few critical residues at the top part of the binding pocket that make contact with ecdysteroids but not with non-ecdystcroids such as diacylhydrazines. Applicants made substitution mutations of the residues that make contact with ecdysteroids and/or non-ecdysteroids and determined the mutational effect on ligand binding. Applicants describe herein substitution mutations at several of these residues and have identified several classes of substitution mutant receptors based upon their binding and transactivation characteristics. Applicants' novel substitution mutated nuclear receptor polynucleotides and polypeptides are useful in a nuclear receptor-based indueiblc gene modulation system for various applications including gene therapy, expression of proteins of interest in host cells, production of transgenic organisms, and cell-based assays.
GENERAL METHODS
Standard recombinant DNA and molecular cloning techniques used herein are well known in the art and are described by Sambrook, J., Fritsch, E.F. and Maniatis, T. Molecular Cloning: A Laboratory Manual' Cold Spring Harbor Laboratory Press: Cold Spring Harbor, N.Y.. (1989) (Maniatis) and by T.J.Silhavy, M.L. Bcnnan, and L.W. Enquist, Experiments with Gene Fusions, Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y. (1984) and by Ausubel, F.M. et al., Current Protocols in Molecular Biology, Greene Publishing Assoc. and Wiley-Interscience (1987).
Materials and methods suitable for the maintenance and growth of bacterial cultures are well known in the art. Techniques suitable for use in the following examples may be found as set out in Manual of Methods for General Bacteriology (Phillip Gerhardt, R.G.E. Murray, Ralph N. costilow, Eugene VV. Nester, Willis A. Wood, Noel R. Krieg and G. Briggs Phillips, eds), American Society for Microbiology, Washington, DC. (1994) or by Thomas D. Brock in Biotechnology: A Textbook of Industrial Microbiology, Second Edition, Sinauer Associates, Inc., Sunderland, MA (1989). All reagents, restriction enzymes and materials used for the growth and maintenance of host cells were obtained from Aldrich Chemicals (Milwaukee, WI), DIFCO Laboratories (Detroit, MI), GIBCO/BRL (Gaithersburg, MD), or Sigma Chemical Company (St. Louis, MO) unless otherwise specified.
Manipulations of genetic sequences may be accomplished using the suite of programs available from the Genetics Computer Group Inc. (Wisconsin Package Version 9.0, Genetics Computer Group (GCG), Madison, WI). Where the GCG program "Pileup" is used the gap creation default value of 12, and the gap extension default value of 4 may be used. Where the CGC "Gap" or "Bestfif program is used the default gap creation penalty of 50 and the default gap extension penalty of 3 may be used. In any case where GCG program parameters are not prompted for, in these or any other GCG program, default values may be used.
The meaning of abbreviations is as follows: "h" means hour(s), "min" means minutc(s), "sec" means second(s), "d" means day(s), "uL" means mocroliter(s), "mL" means milliliter(s), "L" means

litcr(s), "uM" means micromolar, "mM" means millimolar, "fig" means micrograms(s), "mg" means milligram(s), "A" means adenine or adenosine, "T" means thymine or thymidine, "G" means uuanine or guanosinc, "C" means cytidine or cytosine, "x g" means times times gravity, "nt" means nucleotide(s), "aa" means amino acid(s), "bp" means base pair(s), "kb" means kilobase(s), "k" means kilo, "u" means micro, and "°C" means degrees Celsius.
EXAMPLE 1
This Example describes the construction of several gene expression cassettes comprising novel substitution mutant Group II nuclear receptor polynucleotides and polypeptides of the invention for use in a nuclear receptor-based inducible gene expression system. Applicants constructed gene expression cassettes based on the spruce budworm Choristoneura jumiferana EcR (CfEcR). The prepared receptor constructs comprises a ligand binding domain of either an EcR or a chimera of 1 lomo sapiens RXllp-LmRXR; and a GAE4DNA binding domain (DBD) or a VP16 transactivation domain (AD). The reporter constructs include the reporter gene luciferase operably linked to a synthetic promoter construct that comprises a GAL4 response element to which the Gal4 DBD binds. Various combinations of these receptor and reporter constructs were cotransfectcd into mammalian cells as described in Examples 2-5 infra.
Gene Expression Cassettes: Eedysone receptor-based gene expression cassettes (switches) were constructed as followed, using standard cloning methods available in the art. The following is a brief description of preparation and composition of each switch used in the Examples described
herein.
1,1 - GAf4Cn-:cR-DI-F/VP16-pRXREF-LmRXREF: The wild-type D, E, and F domains from
spruce budworm Choristoneura funiferana EcR ("CfEcR-DEF"; SEQ ID NO: 21) were fused to a
GAI.4DNA binding domain ("GaMDNABD" or "Gal4DBD"; SEQ ID NO: 6) and placed
under the control of a CMV promoter (SEQ ID NO: 2). Helices 1 through 8 of the EF domains from domains from homo sapiens RXRp ("HsRXR|3-EF"; nucleotides 1-465 of SEQ ID NO: 3) and helices 9 through 12 o the EF domains of Locusta migratoria Ultraspiracle Protein ("LmRXR-EF"; nucleotides 403-630 of SEQ ID NO: 23) were fused to the transactivation domain from VP16 ("VP16AD"; SEQ ID NO: 12) and placed under the control of an SV40e promoter (SEQ ID NO: 22). Five consensus GAL4 response element binding sites ("5XGAL4RE"; comprising 5 copies of a GA1.4RE comprising SEQ ID NO: 19) were fused to a synthetic TATA minimal promoter (SEQ ID NO: 24) and placed upstream of the luciferase reporter gene (SEQ ID NO: 25).
1.2 G A1.4-'mutantC IHcR-DEF/VP 16-pRXREF-LmRXREF: This construct was prepared in the same way as in switch 1.1 above except wild-type CfEcR-DEF was replaced with mutant CfEcR-DLF comprising a ligand binding domain comprising a substitution mutation selected from Table 1
below.
Table 1. Substitution Mutants of Choristoneura fumiferana Eedysone Receptor ("CfEcR") Ligand
Binding Domain (LBD).
(Table Remove)






J90.410 and 335, rcHpcctively
Construction of Ecdysonc Receptor Ligand Binding Domains Comprising a Substitution
.Mutation:
In an effort to modify RcR ligand binding, residues within the EcR ligand binding domains that were predicted to be important for ligand binding based upon a molecular modeling analysis were mutated in HeRs from three different classes of organisms. Table 1 indicates the amino aeid residues within the ligand binding domain of CfEcR (Lepidopteran EcR) (SEQ ID NO: 1) that were mutated and examined for modification of ecdysteroid and non-ecdysteroid binding.
l:ach one of the amino acid substitution mutations listed in Table 1 was constructed in an EcR cDNA by PCR mediated site-directed mutagencsis. In addition to the many single mutation point mutations made, two different double point mutant CfEcRs were also made: one comprising both the VI 281; and All OP substitutions (V128F/A110P), and a second comprising both the Nl 19F and \'%T substitutions (Nl 19F/V96T). Three different triple point mutant CfEcRs were also made: one comprising the V1071, Y127E and A110P substitutions (V107I/Y127E/A110P), the second comprising the V107I, Y127E and T52V substitutions (V107I/Y127E/T52V), and the third comprising the VI071 and Y127I- substitutions and a glyeinc (G) insertion (V107I/Y127K/259G) (SHQ ID NO: 1).
PCR site-directed mutagencsis was performed using the Quikehange site-directed mutagenesis kit (Stratagene, La Jolla, CA) using the reaction conditions cycling parameters as follows. PCR site-directed mutagenesis was performed using Ix reaction buffer (supplied by manufacture), 50 ng of
dsDNA template, 125 ng of forward primer (FP), 125 ng of reverse complementary primer (RCP), and 1 uL of dNTP mix ( supplied by manufacturer) in a final reaction volume of 50 jaL. The forward primer and reverse complementary primer used to produce each EcR mutant are presented in 'fable 2. The cycling parameters used consisted of one cycle of denaturing at 95" C for 30 seconds, followed by 16 cycles of denaturating at 95°C for 30 seconds, annealing at 55°C for 1 minute, and extending at 68° C for 22 minutes.
Table. 2. PCR Primers for Substitution Mutant CfEcR Ligand Binding Domain Construction
(Table Remove)




The resulting PCR nucleic acid products encoding the mutant EcR ligand binding domains were then each fused to as GAL4 DNA binding domain as described in Example 1.2 above. The GAL4/mutant EcR receptor constructs were tested for activity by transfecting them into NIH3T3 cells along with VP16/(3RXREF-LmRXREF and pFRLuc in the presence of various ligands.
The Gal4-CfEcR-DEF (VYG) mutant was created by inserting an extra glycine at the C-terminal end of EcR substitution mutant V107I/Y127E[CfECR(VY)] by PCR. Essentially, this was done in two steps: PCR-amplification of CfEcR-DEF(VYG) and substitution of the CfEcR(VY) in the \ector GAU-CIEeR DEF(VY) pBIND 1-9 with the PCR-amplified CfficR-DEl-(VYG). The C'il'cR-Dl::!' region (with the extra glycine) was amplified by using the vector GAL4-CfEcR Dl-:i;(VY) pBIND 1-9 as template and the following PCR primers: 51-cR-wt
GCJAATTCCCGGGGATCCGGCCTGAGTGCGTAGTACCC (SEQ ID NO: 175) 3hcR-gly

"TCTCTGCGGCCGCCTATCCGAGATTCGTGGGGGACTCGAGGATAG (SEQ ID NO: 176)
The PCR product was isolated and digested with Not I (cuts at the 3' end; included in the 3' PCR irimer) and Xma 1 (cuts at the 5' end; present in the 5'PCR primer). This product was ligated to the ,-cctor prepared in the following way: GAL4-CfEcR DEF(VY) pBIND 1-9 was digested with Xma and Not 1 ( the digestion removes the CfEcR-DEF(VY) from the vector). The fragments were separated on 1% agarose gel and the slower migrating vector DNA was purified. After ligation between the vector and the CfEcR-DEF(VYG) fragment described above, the ligation reaction was ransformed into bacteria. The positive colonies were selected by colony PCR using the primers nentioned above. The VYG mutations in the selected clone were confirmed by sequencing.
EXAMPLE 2
his Example describes the identification of ecdysteroid responsive CfEcR ligand binding domain institution mutants that exhibit increased activity in response to ecdysteroidal ligand. In an effort o identify substitution mutations in the CfEcR that increase ecdysteroidal ligand activity, \pplicants mutated ami no acid residues predicted to be critical for ecdysteroid binding and created jAE4/mutantCfEcR-DEF cDNA gene expression cassettes as described in Example 1 above using 'CR-mediatcd site-directed mutagcncsis kit. The mutated and the WT cDNAs corresponding to the •arious switch constructs outlined above in Example were made and tested in GAL4-driven iicil'erase reporter assays as described below.
ransfcctions: DNAs were transfectcd into mouse NIH3T3 cells (ATCC) as follows. Standard .icthods for culture and maintenance of the cells were followed. Cells were harvested and plated '6-well plates at 2, 500 cells per well, in 50 uL of growth medium containing 10% fetal bovine erum (FBS). Twenty-four hours later, the cells were treated with 35uL of serum-free growth icdium containing either dimethylsulfoxide (DMSO' control) or a DMSO solution of ligand. The ells were then transacted using Superfect'M (Qiagen Inc.) transfection reagent. For each well, .625 LiL of SuperfectIM was mixed with 14.2j.iL of serum-free growth medium. 0.16ug of reporter onstruct and 0.04 ug of each receptor construct were added to the tranfection reagent mix. The ontents of the transfection mix were mixed in a vortex mixer and let stand at room temperature for 0 minutes. At the end of incubation, 15 jaL of transfection mix was added to the cells. The cells /ere maintained at 37" C and 5%CO2 for 48 hours in 5% FBS.
.igands: The ecdysteroidal ligands ponasterone A and 20-hydroxyecdysone were purchased from igma Chemical Company and Invitrogen. The non-ecdysteroidal diacylhydrazine ligand N-(2-thy!-3-methoxybenzoyl)-N'-(3,5-dimethylbenzoyl)-N'-tert-butylhydrazine(RG-l 02240, GS@-E mind) is a synthetic stable ecdyecdysteroid ligand that was synthesized at Rohm and Haas 'ompany. The non-eedysteroidal, diacylhydrazine ligands RG-101691, RG-102362, RG-115840, .G-l15853, RG-115855, RG-115859 and RG-115898 were synthesized by RheoGene Inc. The vnthesis of RG-101691, RG-102362, RG-115840, RG-115859 and RG-115898 is described below. 'he synthesis of RG-1 15853 and RG-115855 is described in co-pending U.S. Patent Application ,o. 10/775, 883. The non-ecdysteroidal tetrahydroquinoline ligands RG-120499 and RG-120500 ere synthesized by RheoGene, Inc. and were described in co-pending U.S. Patent Application No. 0/460, 820. All ligands were dissolved in DMSO.
.igand Synthesis:
reparation of 3, 5-Dimcthyl-bcnzoic acid N-tert-butyl-N'(3-ethvl-2-methyl-benzoyl)-hydrazidc

O -, -OH
'.. HjivU, '-«>•"
I Hi* '
3-Aniino-2-mcthylbcn/.oic acid (6.16g) was heated at reflux for 30 minutes in concentrated HBr. The mixture was cooled to 0 "C and treated with a solution of NaNO2 at 0 °C (2.8 g in 5.6 ml. H?O). The resultant dia/.onium salt solution was slowly added to a preheated (60-70 °C) solution of CuBr (3.8g) in 3.2 ml. concentrated HBr. After the addition, the mixture was stirred overnight at room temperature and filtered. The recovered filter cake was washed first with water and then with 10% I KM. and dried in air to yield 6.93 g of 3-bromo-2-methylbenzoic acid as a light purple powdery solid. This material was dissolved in ethyl acetate, washed twice with 5% HC1, dried over \u;>SO,i, and recrystalli/cd from 4:1 hcxanes:ethyl acetate first at room temperature and then under refrigeration. 'lINMR (DMSO, 200MHz), 5 (ppm): 7.72 (dd, 2H), 7.2 (t, 1H), 2.5 (s, 3H).
son-
'
3-Bromo-2-mcthylbcn/oic acid (7.03g, 32.7 mmol) was refluxed in lOmL of SOCK (98mmol) and a drop of DMF for 3 hours. Excess SOCli was removed in vacuo. The residue was dissolved in 20 ml. of CH.--C12 and added to an ice-chilled solution of 2-amino-2-methyl-propan-l-ol (8.74 g, 9.36ml.) in 20 mL of CHjCli. The mixture was stirred at room temperature for 18 hours and the solvent was removed /'/; vacuo to leave an oily residue. SOCl2(7.4 mL, lOOmL, 3 eq.) was added to this residue over a period of one hour, the mixture was stirred an additional 30 min, and then poured into 1 50m L of ether.
An oily immiscible phase formed and the ether was discarded. The oil was mixed with 100 mL of 20% NaOll, and extracted with 3x 150 mL portions of ether. The ether extracts were combined, dried over MgSO.}, and the solvent was removed in vacuo to yield a yellow oil. Chromatography on silica gel using 4:1 hexane: ether as eluant yielded 4.87 g of 2-(3-bromo-2-melhyl-phenyl)-4, 4-dimcthyl-4,5-dihydrooxazole as a colorless oil. (Rf=0.25 (4:1 haxene: ether). 'H NMR (CDC13, 200 Ml I/), is 8 (ppm): 7.62 (m, 2H), 7.1 (T, 1H), 4.1 (s, 2H), 2.6 (s, 3H), 1.4 (s, 6H).
(Figure Remove)
2-(3-bromo-2-melhyl-phenyl)-4,4-dimethyl-4,5-dihydro-oxazole (3.4g, 12.7 mmol) was dissolved in 3()mL of ethyl ether under nitrogen atmosphere in a 100 mL round bottom flask equipped with magnetic stirring, thermometer, and reflux condenser. Ni(dppp)Cl2 (100 mg) was added and the mixture was cooled to 0 °C for 30 minutes, at room temperature for 2Vz hours, and finally at reflux for 2 hours. The mixture was then cooled to 0 "C, quenched with

saturated aqueous N114C1. The organic layer was removed and the aqueous layer was extracted with ether. The organic phases were combined and dried over MgSO4. The solvent was removed in vacua to give 2.84g 2-(3-ethyl-2-mcthyl-phenyl)-4,4-dimethyl-4,5-dihydro -oxazole, 'll NMR (CDCh. 200 MHz), 5 (ppm): 7.5 (d, 211), 7.2 (m, 211), 4.1 (s, 2H), 2.7 (m, 2H), 2.45 (s, 311), 1.4 (s, 611), 1.2 (t, 311), Rf-0.25 (4:1 hexanc:ether), containing Ca 5% original aryl bromide. The oxa/oline was suspended in 100 mL of 6N HC1 and refluxed for 5 hours with vigorous stirring. The mixture was allowed to cool to room temperature, whereupon 3-ethyl-2-methyl-benzoic acid crystalli/cd:1.74 g, m.p. 96-98 °C, 'H NMR (CDC13, 200 MHz), 5 (ppm):7.85 (d, 1H), 7.4 (d, 111), 7.22 (t, 111), 2.7 (q, 2H), 2.6 (s, 3H), 1.21 (t, 3H). An additional 110 mg was recovered by ether extraction of the aqueous phase.
(Figure Remove)
3-Hthyl-2-methyl-ben/oic acid (0.517 g) was refluxed in 3 mL of thionyl chloride with a drop of DY1F for several hours. Thionyl chloride was removed in vacua to yield 0.89 g (4.48 mmol) of 3-elhyl-2-methyl-benzoyl chloride. The acid chloride was dissolved in 5 mL of CH2Cl2 and added slowly and simultaneously but separately with 5 mL of aqueous NaOH (0.30 g, 7.5 mmol) to a solution of 3, 5-dimcnthyl-bcn/oic acid N-tert-butyl-hydrazide (0.96 g, 4.36 mmol) dissolved in 10 ml. of C?I-[nCb prechilled to 5 °C. During the addition, the temperature was kept below 5 "C. The mixture was allowed to warm slowly to room temperature and was stirred overnight. The organic layer was removed and the aqueous layer was extracted with CH2C12. The organic extracts were combined, dried, and solvent was removed in vacua to give 1.5 g crude product. This residue was extracted with 100 mL of hexanes under reflux, and the hot extract was decanted from an oily residue and allowed to cool to room temperature, whereupon 3,5-dimethyl-benzoic acid N-tcrt-butyl-N'-(3-ethyl-2-methyl-bcnzoyl)-hydrazide crystallized (0.56 g, m.p. 167-169 °C, 'll NMR (CDC1-,, 200MH/), 8(ppm):7.43(s,lH), 7.18 (m, 1H) 7.1 (s, 2H), 7.03 (s, 1H), 7.0 (m, 1H), 6.35 (d, 111), 2.58 (q, 211), 2.3 (s, 311), 1.6 (s, 9H), 1.15 (t, 3H). Dissolution of the oily residue and crystallization yielded a second crop of less pure material, 0.21 g.
Preparation of 3.5-Dimethyl-benzoic acid N-tert-butyl-N'-(3-isopropyl-2-methyl-bcnzoyl)-
hydra/ide (RG-102362
nci
A dry 3-neck 250 mL round bottom flask equipped with magnetic stirring and held under a nitrogen atmosphere was charged with 5.0 g 2-(3-bromo-2-methyl-phenyl)-4,4-dimethyl-4,5-dihydro-oxa/ole, 60mL anhydrous TI IF, and 100 mg Ni(dppp)ClT. The mixture was cooled to 15 °C, and the isopropyl magnesium chloride (11 mL, 2M in ethyl ether) was added. A mild exothern took place, and the mixture darkened slightly. The reaction was stirred overnight at room temperature, at which point '11 NMR indicated 50% completion. Addition of ca 75 mg Ni(dppp)Cl2 and reflux for 3 hours

resulted in no further progression of the reaction. The mixture was cooled to 15 °C, and an additional 13 mL of isopropyl magnesium chloride (2M in ethyl ether) and 100 mg of nickel catalyst were added and the mixture was stirred overnight at room temperature. The reaction was quenched with saturated aqueous NH4,C1, the organic layer was removed, the aqueous layer was extracted, and the organic phases were combined and dried. The solvent was removed in vacua to yield 3.84 g crude product as a yellow oil. Column chromatography on silica gel using 4:1 hex anus: ether as cluant yielded 0.79 g of 2-(3-isopropyl-2-methyl-phenyl)-4,4-dimethyl-4,5-dihyclro-oxa/.ole as a colorless oil. 'li NMR (CDC13, 200 MHz), 5 (ppm): 7.5 (d, 1H), 7.37 (d, 111), 7.22 (l, 114), 4.13 (s, 2H), 3.23 (m, 1H), 2.5 (s, 3H), 1.45 (s,6H), 1.22 (d, 6H). The oxazolinc was suspended in 34 mL of 6N HC1 and refluxed in oil bath for 6 hours. The mixture was cooled and extracted with CH^Cli. The extract was dried over NaaSC^ and evaporated to yield 0.76 g of 3-isopropyl-2-methyl-bcn/oic acid, suitably pure for the next step. 'H NMR (CDC^), 300 MM/.), $ (ppm): 7.8 (d, Hi), 7.48 (d, 1H), 7.3 (t, 1H), 3.3 (m, 1H), 2.55 (s, 3H), 1.2 (d, 6H).
(Figure Remove)
' "
3-isopropyl-2-mcthyl-bcn/oic acid (0.75 g) was refluxed in ca. 3 mL of thionyl chloride with a drop of DMF fro several hours and thionyl chloride was removed in vacua to yield 3-isoproyl-2-methyl-bcn/.oyl chloride. The acid chloride was dissolved in 5 mL of CHaCb and added slowly and simultaneously but separately with 5 mL of aqueous NaOH(0.265 g, 6.6 mmol) to a solution of 3, 5-dimcthyl-bcn/oic acid N-tert-butyl-hydrazide (0.973 g, 4.4 mmol) dissolved in 10 mL of CHjCK prechillcd to -5 °C. During the addition, the temperature was kept below 5 °C. The mixture was allowed to warm slowly to room temperature and was stirred overnight. The organic layer was removed and the aqueous layer was extracted with CFkCb . The organic extracts were combined, dried, and solvent was removed in vacua to give 1.61 g of crude product as a yellow oil. This material was chromatographed on silica gel using 4:1 hexanes:ethyl acetate as eluant, and subsequently triturated from 1:1 hexane:ether, yielding 3,5-dimethyl-ben7oic acid N-tert-butyl-N1-(3-isopropyl-2-methyl-benzoyl)-hydrazide, after arduous removal of ether in a vacuum oven at 60 "C (0.35 g, m.p. 182.5 "C. 'll NMR (CDC13, 200MHz), 5(ppm): 7.6 (s, 1H), 7.25 (d, 1H), 7.1 (s, 211), 7.05 (s. 111), 7.0 (m, 1H), 6.3 (d, 1H), 3.1 (m, 1H), 2.3 (s, 6H), 1.95 (s, 3H), 1.6 (s, 911), 1.18 (m. 611).
Preparation of 3,5-dimethyl-benzoic acid N>-(5-ethyl-2,3-dihydro-benzol[l,4]dioxine-6-carbonyl)-
N-( 1 -ethvl-2.2-dimcthyl-propyl)-hvdrazide (RG-115858)
(Figure Remove)

2.38 g (18 mmol) of t-butyl carbazate were dissolved in 50 mL of CHzCh in a 250 mL round bottom flask and cooled to 0 "C. An aqueous KoCOs solution was prepared (4.15 g K^COs / 35 mL ING) and added to the reaction mixture which was again cooled to 0 °C. 3.63 g (16 mmol) of 5-cthyl-2,3-dihydro-benzol[l,4]dioxine-6-carbonyl chloride were dissolved in 40 mL of CH^Cl 2 and added from a separatory funnel, drop-wise over 15 min. The reaction mixture was stirred at room

temperature for 3 days. The reaction mixture was transferred to a separatory funnel with CI-LCL and H?O. The water phase was thoroughly extracted with CH2C12. The CH2C12 extract was then extracted with 0.5N MCI, dried, and evaporated. The residue was further dried in a vacuum oven to .vicl o
5.15 g (16 mmol) of N'-(5-ethyl-2,3-dihydro-benzol[l,4]dioxine-6-carbonyl)-hydrazinecarboxylic acid tcrt-butyl ester were added to a 200 mL round bottom flask. About 20 mL of trifluoroacctic acid were added and the reaction mixture was stirred at room temperature for 24 hours. Then about 40 mL of water were added, followed by the slow addition of cold 10% NaOH/H2O, with stirring, until the acid was neutralized (pH~14). The reaction mixture was transferred to a separatory funnel and extracted with ethyl acetate by shaking gently (caution: gas evolution). The ethyl acetate extract was dried and evaporated to yield 5.51 g of a pale, viscous yellow semi-solid. The material was then placed in a 50 "C vacuum oven for about 1 hour to yield 4.62 g of 5-ethyl-2,3-dihydro-benzo[ 1,4] dioxinc-6-carboxylic acid hydrazide. The t-Boc cleavage is best accomplished with neat trifluoroacetic acid; use of adjunctive solvents always resulted in much lower yields, 'li NMR (CDC13) 500 MHz) 5 (ppm): 7.0 (br, 1H), 6.83 (m, 1H), 6.71 (m, 1H), 4.28 (brs, 411). 2.76 (m, 211), 1.6 (br, 2H), 1.17(l,3H).
1.12 g (5.1 mmol) of 5-cthyl-2,3-dihydro-benzofl,4]dioxine-6-carboxylic acid hydrazide, 1.37 g (12 mmol) of 2,2 dimethyl pentanone-3, 30 mL of ethanol, and 20 drops of glacial acetic acid were refluxed for 6 hours to generate 5-ethyl-2,3-dihydro-benzo[l,4]dioxine-6-carboxylic acid (1-ethy)-2.2- dimcthyl-propylidcne)-hydrazide, which was used in situ. To the cooled reaction mixture, was added 3 mL of glacial acetic acid and 0.63 g (10 mmol) of NaCNBH3. The reaction was stirred at room temperature for 24 hours. 25 mL of water were added and most of the alcohol was removed on a rotary evaporator. Then 10% NaOH/lLO was added until the reaction mixture was basic. The product was extracted with ethyl acetate, which was then dried and evaporated to give 1.61 g of residue. Pure 5-ethyl- 2,3-dihydro-bcnxo[ l,4]dioxine-6-carboxylic acid N'-(l-ethyl-2,2-dimcthyl-propyl)-hydrazide was obtained (ca. 0.77 g) by column chromatography on silica gel, eluting with 25%'cthyl acctate/hcxane. TLC: Rf-0.53, 1:1 ethyl acetate: hexane). *H NMR (CDC13), 500 MHx) iS (ppm): 7.1 (brs, 111) 6.8 (d, lH),6.7(d, Hi), 4. 27 (m, 4H) 2.8 (m, 2H), 2.4 (m, Hi), 1.7(m, 111), 1.3(m. Ill), 1.2(1,311), 1.15 (t, 311), 0.97 (s, 9H).

(Figure Remove)
0.214 g (0.70 mmol) of 5-ethyl-2,3-dihydro-benzo[l,4]dioxine-6-carboxylic acid N'-(l-cthyl-2,2-climcthyl-propyl)-hydra/ide, 151 mg (0.9 mmol) of 3, 5 dimethylbenzoyl chloride, 7 mL of 25% IV'CO.v'l b.O and 7 mL of CHiCli were added to a 20 mL vial and stirred at room temperature for 24 hours. The reaction mixture was transferred to a scparatory funnel, and dilute NallCOj and QNCI?. were added. The CHiCN layer was separated and the water layer extracted twice with CHiCK The ClLrii extracts were dried over MgSO4 and evaporated to yield 0.59 g of a white residue. Purification by column chromatography and elution with 15 mL of 20% ethyl acetatc/hcxanc yielded about 350 mg of 3,5-dimethyl-benzoic acid N'-(5-ethyl-2,3-dihydro-benzo[l,4]dioxine-6-carbonyl)-N-(l-ethyl-2,2-dimethyl-propyl)-hydrazide (95% pure by TLC:Rf=0.56, 1:1 ethyl acetate:hcxane). *H NMR (CDC13, 500MHz) 5 (ppm): 7.05 (s,lH), 7.0 (s, 2H), 6.6 (d, 1H), 6.27 (d, 111), 4.65 (d. 111), 4.25 (s, 4H), 2.9 (m, 1H), 2.3 (s, 6H), 2.0 (m, 1H), 1.55-1.7 (m, 2H), 1.25 (m, 311). 0.9-1.2 (3s, 911), 0.9(1, 311).
1 'reparatjon.of 355-dimethoxy-4-mcthyl-bcnzoic acid N-( 1 -tert-butyl-3,4,4-trimethyl-pcnt-2-cnyl)-N'-(5-ethyl-2,3-dihvdro-benzo[l,4)dioxine-6carbonyl)-hvdrazide(RGl 15898)
2.38 g (18 mmol) of t-bulyl carbazate were dissolved in 50 mL of CH2C12 in a 250 mL round bottom flask and cooled to 0 °C. An aqueous K2CO3 solution was prepared (4.15 g K?C03/35 mL 1I20) and added to the reaction mixture which was again cooled to 0 °C. 3.63 g (16 mmol) of 5-cthyl-2,3-dihydro-benzo[l,4]dioxine-6-carbonyl chloride were dissolved in 40 mL of CH2C12 and added from a separatory funnel, drop-wise over 15 min. The reaction mixture was stirred at room temperature for 3 days. The reaction mixture was transferred to a separatory funnel with CH?C12 and H2O. The water

Phase was thoroughly extracted with CH2C12. The CH2C12 extract was then extracted with 0.5N HC1, dried, and evaporated. The residue was further dried in a vacuum oven to yield 5.15 g of a tan solid N'-(5-ethyl-2, 3-dihydro-bcnzo [1, 4] dioxine-6-carbonyl)-hydrazinecarboxylic acid tert-butyl ester. TLC (1:1 ethyl acetate: hexane) gave a single spot at Rf = 0.43 and NMR indicated a very pure product' 'H N.MR (CDCI3, 500 MHz) 5 (ppm): 7.5 (br, 1H), 7.0 (br, 1H), 6.75 (d, 2H), 4.28(br, 4H), 2.76 (m, 2H), 1.5(s, 9H), 1.18(t,3H).
(Figure Remove)





5.15 g (16 mmol) of N'-(5-ethyl-2,3-dihydro-benzo [1,4] dioxine-6-carbonyl) hydrazinecarboxylic acid tert-butyl ester were added to a 200 mL round bottom flask. About 20 mL of trifluoroacetic acid were added and the reaction mixture was stirred at room temperature for 24 hours. Then about 40 mL of water were added, followed by the slow addition of cold 10% NaOH/H2O, with stirring, until the acid was neutralized (pH-~14). The reaction mixture was transferred to a separatory funnel and extracted with ethyl acetate by shaking gently (caution: gas evolution). The ethyl acetate extract was dired and evaporated to yield 5.51 g of a pale, viscous yellow semi -solid. The material was then placed in a 50 C vacuum oven for about 1 hour to yield 4.62 g of 5-ethyl-2, 3-dihydro-benzo [1,4] dioxine-6-carboxylic acid hydrazide. The t-Boe eleavage is best accomplished with neat trifluoroacetic acid; use of adjunctive solvents always resulted in much lower yields. 'HNMR (CDC13. 500MHz) 5 (ppm): 7.0 (br, 1H), 6.83 (m, 1H), 6.71 (m, H), 4.28 (br s, 4H), 2.76 (m,2H), 1.6(br, 2H), 1.17 (t,3H).
(Figure Remove)

2,2,5,6,6-Pentamethyl-hept-4-en-3-one (1.48 g, 8.1 mmol) was dissolved in n-butyl alcohol (20 mL). Then 5-ethyl-2,3-dihydro-benzo [1,4] dioxine-6-carboxylic acid hydrazide (1.80 g, 8.1 mmol) and 10 drops of glacial acetic acid were added. The reaction mixture was refluxed for 20 hours (required for complete reaction) and monitored by TLC. To a solution of the intermediate 5-ethyl-2,3-dihydro-ben/o| l,4]dioxine-6-carboxylic acid (l-tert-butyl-3,4,4-trimethyl-pent-2 enylidene)-hydrazide were added 1.8 mL glacial acetic acid and 1.02 g(16.2 mmol) of sodium cyanoborohydride. The reaction was reiluxcd for three hours. The reaction was cooled and 50 mL of water and 10% aqueous NaOH were added until the reaction was basic (pH = ca. 14). Most of the alcohol was reomed on a rotary evaporator and the residue was extracted with EtOAc. The aqueous extract was dried and concentrated to constant weight, yielding 4 g of a viscous material. 2.3 g pure 5-ethyl-2,3-dihydro-benzo [1,4] dioxine-6-carboxylic acid N-(l-tert-butyl-3,4,4-trimethyl-pent-2-enyl)-hydrazide was obtained(yellow oil, Rf 0.30 in 25% KtOAC in n-Hexane, yield 73%) by column chromatography on silica gel. *H NMR (400 MM/, CDC13) 5 (ppm): 7.42 (br,lH), 6.80 (d,J = 8.4Hz, 1H), 6.71 (d,J = 8.4 Hz, 1H) 6.17 (br, 1H), 5.30 (dd, J 0.8, lOHz, 1H), 4.33-4.29 (m,4H), 3.68(d, J =10Hz, 1H), 2.80 (m,2H), 1.72 (s, 3H), 1.21 (s,3H), 1.12(s, 9H), 1.05(s,9H).
(Figure Remove)





5-l:thyl-2,3-dihydro-benzo [1,4] dioxine-6-carboxylic acid N'-(l-tert-butyl-3,4,4-trimethyl-pent-2-enyl)-hydra/idc (150 mg, 0.39 mmol) and 3,5-dimethoxy-4-methylbenzol chloride (83 mg, 0.39 mmol) were dissolved in 5 mL CH2C12. 5 mL of 25% K2CO3 were added, and the reaction mixture was stirred at room temperature overnight. The reaction was monitored by TLC. The pahse were separated, adding additional CH2C12 and/or water as needed to aid manipulation. The CH2C12 layer was dried and solvent was removed in vacuo to provide 210 mg of crude product. This material was purified by silica gel column chromatography, eluting with a step gradient of 10-25% ethyl acetate in hexane to yield 3,5-dimethoxy-4-methyl-benzoic acid N-(l-tert-butyl-3,4,4-trimethyl-pent-2enyl)-N -(5-ethyl-2,3-dihydro-ben/o [1,4] dioxine-6-carbonyl)-hydrazide RG115898 (83 mg, Rf =0.19 in 25% ethyl acetate in n-hexanc, yield 38%). 'll NMR (400 MHz, DMSO-d6) 8 (ppm): 10.19 (s, 1H), 6.75 (d,J =8.0 Hz, 1H), 6.69 (S,2H), 6.61 (d,J - S.OHz, 1H), 5.43 (d, J =10.0 Hz, 1H), 5.41 (d, 14.4 Hz, 1H), 4.30-4.20 (m,4H), 3.80 (s, 611), 2.21-2.15 (m,lH), 2.01 (s,3H), 1.81 (m, 1H), 1.76-1.64 (m, 1H), 1.06 (s, 9H), 1.00 (s,9H), 0.70(t, J 7.6 Hz, 311).

Preparation of 3.5-dimethyl-bcnzoic acid N-(l-tert-butyl-pcntyl)-N -(4-cthyl-benzoyl)-hydra/idc
(RC0115840) (Figure Remove)


PCC
25 C
2,2 Dimethyl-heptan-3-ol (0.23 mol) was dissolved 350 mL of CH2C12 in a 500 mL round bottom flask with a magnetic stirbar. The flask was partially cooled with ice. 76.6 g (0.355 mol) of pyridinium chlorochromatc was added, while vigorously stirring. The reaction turned black and wanned up slightly. 'Hie reaction mixture was stirred at room temperature for 24 hours. The solution was decanted away from the black sludge, which was rinsed with hexane. The organic extracts were combined and chromatographcd directly on silica gel. (Note: only silica has been fount to trap and remove the reduced non-reacted chromium compounds). The product, 2,2 -dimethyl-heptan-3 one, eluted with CH2CL2/hexane and in a subsequent 10% ethyl acetate/hexane fraction to yield 29.19 g of product at 88% yield. 'llNMR (CDC13, 500 MHz) 5 (ppm): 2.48 (t, 2H), 1.54 (m,2H), 1.28 (m,2H), 1.13 (s,9H), 0.90 (m, 3H).
Prcparation ot'4-ethyl-benzoic acid N -(1-tert-butyl-pentyD-hydrazide
(Figure Remove)

4-Kthyl-benzoic acid hydrazide (1.64 g, 10 mmol) were dissolved in 12.5 mL methanol. One drop of acetic acid was then added, followed by 1.55 g 2,2-dimethyl-heptan-3-one. The mixture was stirred at room temperature for several days, at which time 2.1 mL acetic acid and 667 mg NaB^CN were added.After sitting for ca. 7 hours, the methanol was removed in vacuo. The residual product was diluted with ca. 20 ml. of water and extracted with methylene chloride. The extracts were dried over MgSO4, filtered from solids, and solvent was removed in vacuo to provide. 1.8 g crude product. This material was purified by column chromatography on silica gel, eluting with a 100% hexanes -100% ethyl ether gradient. 4-lvthyl-benzoic acid N' -(l-tert-butyl-pentyl)-hydrazide was recovered in 45% yield (1.32e). (Figure Remove)







4-Ethyl-ben/oid acid N'-(l-tert-butyl-pentyl)-hydrazide (145.2 mg, 0.5 mmol) was dissolved in 5ml. Methylene chloride and 1.5 mmol PS-NMM (804 mg, a-SO2NH(CH2)3-morpholine functionalized polystyrene resin available from Argonaut technologies, San Carlos, CA) was added. The mixture was diluted with 3 ml methylene chloride to generate a stirrable suspension. 3,5-dimethylbenzoyl chloride (0.5 mmol, 74 ML) was added and the mixture was stirred overnight. The following day, 1 mmol (775 mg) of AP-NCO resin (isocynate-functionalized resin available from Argonaut Technologies, San Carlos, CA) and 1 mmol (401.6 mg) of AP-trisamine (polystyrene-CHzNHC^CHzNNHfC^CHaNHsk resin available from Argonaut Technologies, San Carlos, CA) were added with 3 mL methylene chloride to scavenge remaining starting material. The mixture was stirred for 4 hours, the resins were filtered away, and the filtrate was dried to provide 191 mg crude product which indicated one spot by TLC analysis. This material was purified by flash chromatography on silica gel using a gradient of 100% hexanc-100% ethyl ether. Yeild: 50 mg (ca. 23%) 3,5-dimethyl-benzoic acid N-(l-tert-butyl-pentyl)-N'-(c-cthyl-bcnxoyl)-hydrazide. 'li NMR (CDCL3, 400 MHz) 8 (ppm): 7.8+7.5 (br/br, 1H), 7.4-6.9 (m,7H), 4.7)3.6 (m/m, 1H), 2.65 (m,2H), 2.38+2.28 (s/s, 6H), 1.9+1.75 (br, 2H), 1.4-1.2 (br, m, 7H), 1.1 (br s, 911), 0.95 (brs, 3H).
Report Assays: Cells were harvested 40 hours after adding ligands. 125 ul of passive lysis buffer (part of Dual-luciferase'M reporter assay system from Promega Corporation) were added to each well of the 24-well plate. The plates were placed on a rotary shaker for 15 minutes. Twenty uL of lysate were assayed. Luciterase activity was measured using Dual-luciferase™ reporter assay system form Promega Corporation following the manufacture's instructions. Fold induction (Fl) activites were calculated by dividing relative light units ("RLU") in ligand treated cells with RLU in DMSO treated cells (untreated control).
Example 3
This example describes the identification of CfEcR ligand binding domain substitution mutants that are generally ccdysteroid responsive that exhibit increased activity in response to ecdysteroids. In an effort to identify substitution mutations in the CfEcR that increase ecdysteroid activity, Applicants mutated amino acid residues and created GAL4/Mutant C£EcR-DEF-cDNA gene expression cassettes as described in Example 1 above using PCR-mediated site-directed mutagenesis kit. The muated and the WT cDNAs corresponding to the various switch constructs outlined above in Example 1.1 and 1.2 were made and tested in a GAL4-driven luciferase reporter assay as described in Example 2.
Specific amino acid residues were identified that, when substituted, yield a mutant ecdysone receptor that exhibits increased activity in response to an ecdysteroid ligand. The effect of an amino acid substitution at amino acid residue 119 of SEQ ID NO: 1 on the activity of the mutated CfEcR-DEF receptor is presented in 'fable 3a as a fold increase over Gal4/wild-type (WT) switch activity. The effect of an amino acid substitution at amino acid residue 96 of SEQ ID NO: 1 and double amino acid substitution at amino residues 96 and 119 on the activity of the mutated CfEcR-DEF receptor is presented in table 3b as ECso and relative maximum fold induction. ECsos were calculated from dose
response data using a three-parameter logistic model. Relative Max FI was determined as the maximum fold induction of the tested ligand (an embodiment of the invention) observed at any concentration relative to the maximum fold induction of GS®-E ligand (RG-102240; 3,5-dimethyl-benzoic acid N-tert-|butyl-N-(2-cthyl-3-mchtoxy-benzoyl)-hydrazide) observed at any concentration.
Table 3a. CfEcR-DEF mutant that shows increased ecdysteroid activity Fold Increase over WT
rmpF

] ,6 nM GS*-H ligand & nM GSe-E lieaud (RG- 102240) 40 nM GS*-EliBand (RG-102240) 200 nM GSIT'-E Jigand (RD- 102240) I ixM OS*-E ligaiid (RG- 102240) 5 nM GS*-B Ligand (RG- 102.240)
S nM PoriA 40 nM P6rtA 200 iiM PonA i

L.22 0.73 Q.tHS 0.01 0.08 0.59 1.33 1.7 9.42 6.50 3-00

Tahlcl 3b. CfEcR-DEF mutants that shows increased ecdysteroid activity

Mutant
EC50
Rel Max
V96S H
EC50
Nl L9F/V96T QiM) Rel
N119F/V96T PI

DAH DAH DAH THQ THQ 1CD KG- RG- RG- RG- »G-102140 101691 101362 120499 120500 2GE
L14 0.87 2.07
0,02
&
1 0,9 0.57 0
~% 3.63 -10 -20
0.02 0,46
I 0.13 0.19 0,1

j&cn
0,92
2.02

As seen in Tables 3a and 3b, the activity of ecdysteroids was increased significantly when the CfKcR ligand binding domain was mutated at amino acid residues 96 or 119 of SEQ ID NO: 1 and double mutated at a amino acid risdues 96 and 119 of SEQ ID NO: 1, indicating that these residues are important residues in the ligand binding pocket of CfEcR.
EXAMPLE 4
This Example describes the identification of addition CfEcR ligand binding domain substitution mutants that are generally non-ccdysteroid diacylydrazine responsive that exhibit increased activity in response to diaeylhydra/ine ligand . In an effort to identify substitution mutations in the CfEcR that increase diacylhydra/ine ligand activity Applicants mutated amino acid residues predicted to be critical for ccdystcroid binding and created GAE4/mutantCfEcR-DEF cDNA gene expression cassettes as described

in Hxumplc 1 above using PCR-mediated site-directed mutagenesis kit. The mutated and the WT cDNAs corresponding to the various switch constructs outlined above in Example 2.
Specific umino acid residues were identified that, when substituted, yield mutant ecdysone receptors that exhibit increased activity in response to non-ecdysteroid diacylhydrazine ligands. The effect of an amino acid substitution at amino acid residue 48, 52, 54, 109, 110, 125, 132 and 223 of SEQ ID NO. 1 and a double substitution at amino acid residues 52, and 110 of SEQ ID NO: 1 on the activity of the mutated CTEcR-DEF receptor is presented in Tables 4a and 4b as EC50 and relative maximum fold induction. HCsos were calculated from dose response data using a three-parameter logistic model. Relative Max Fl was determined as the maximum fold induction of the tested ligand (and embodiment of the invention) observed at any concentration relative to the maximum fold induction of GS*"E ligand (3,5-dimethyl-bcn/oic acid N-tert-butyl-N'-(2-ethyl-3-methoxy-benzoyl)- hydrazide) observed at any concentration.
Table 4n, CfHcR mutants that show increased diacy]hydrazine ligand activity (Table Remove)


As seen in Tables 4a and 4b, the activity of diacylhydrazines was increased significantly when the CfEcR ligand binding domain was mutated at amino acid residues 48, 52, 54, 109, 110, 125, 132 and 7.23 of SEQ ID NO: 1 and double mutated at amino acid residues 52 and 110 of SEQ ID NO: 1, -indicating that these residues are important residues in the ligand binding pocket of CfEcR.
EXAMPLE 5
This Example describes the identification of additional CfEcR ligand binding domain substitution mutants that are generally diacylhydrazine and ecdysteroid responsive that exhibit increased activity in response to diacylhydrazine ligand and ecdysteroid. In an effort to identify substitution mutations in the CfEeR that increase diacylhydrazine ligand activity and ecdysteroid ligand activity, Applicants mutated amino acid residues and created GAL4/mutantCfEcR-DEF cDNA gene expression cassettes as described in Example 1 above using PCR-mediated site-directed mutagensis kit. The mutated ant the Vv'T cDNAs corresponding to the various switch constructs outlined above in Example 1.1 and 1.2 were made and tested in GAL4-driven luciferase reporter assays as described in example 2. The effect of an amino acid substitution at amino acid residue 109, 132, 238 of SEQ ID NO: 1 or substitution at amino acid residues 52. 107 and 127 of SEQ ID NO: 1 or 107, 127 and addition of a glycine at the end of SHQ ID NO: 1 on the activity of the mutated CfEcR-DEF receptor is presented in Table 5.
Table 5. CfEcR mutants that show increased diacylhydrazine and ecdysteroid activity.
(Figure Remove)





As seen in Table 5, both diacylhyrazine and ecysteroid activities were increased when the CfEcR ligand binding domain was mutated at amino acid residues 48, 51, 52, 54, 96, 120, 120, 125, 128, 132, 234 and 238, indicating that these residues are important residues in the ligand binding pocket of CfEcR.
Example 6
This example describes the identification of additional CfEcR ligand binding domain substitution mutants that are generally diacylhydrazine and tetrahydroquinoline responsive that exhibit increased activity in response to diacylhydrazine and tetrahydroquinoline ligands. In an effort to identify substitution mutations in the CfEcR that increase diacylhydrazine ligand activity and
tetrahydroquinoline ligand activity, Applicants mutated amino acid residues predicted and created GAL4/mutant CfEcR-DEFcDNA gene expression cassettes as described in Example 1 using PCR-mcdiatcd site-directed mutagenesis kit. The mutated and the WT cDNAs corresponding to the various |rvvilch constructs outlined above in Example 1.1 and 1.2 were made and tested in GAL4-driven luci (erase reporter assays as described in Example 2. The effect of triple mutations at amino acid residues 107, 110 and 127 of SEQ ID NO: 1 and double mutations at 107 and 127 of SEQ ID NO: 1 on the activity of the mutated CfEcR-DEE receptor is presented in 'fable 6.
Table (). C'lEcR mutants that show increased diacylhydrazine and tetrahydroquinoline activity. (Table Remove)


As seen in 'fable 6, both non-ecdysteroid, diacylhyrazine and tetrahydroquinoline activates were increased when the CfEcR ligand binding domain was mutated at amino acid residues 107, 110 and 127 and 107 and 127, indicating that these residues are important residues in the ligand binding pocket of
cn-cR.
EXAMPLE 7
Table 7 describes the effect of the diacylhydrazine GS1M-E ligand versus the DMSO control at various concentrations on the maximum fold induction of various CfEcR mutants.
Table 7. Effect of GSIM-Eligand v. DMSO control on the maximum fold induction of CfEcR mutants.
(Table Remove)
EXAMPLE 8
This Hxamplc describes the identification of additional CfEcR ligand binding domain substitution mutants that exhibit decreased activity in response to diacylydrazine ligands. In an effort to identify substitution mutations in the CfEcR that decrease diacylhydrazine ligand, activity, Applicants mutated amino acid residues predicted to be critical in diacylhydrazine binding and created GAL4/mutant CfHcR-DHF cDNA gene expression cassettes as described in example 1 using PCR-mediated site-directed mutagcncsis Kit. The mutated and the WT cDNAs corresponding to the various switch constructs outlined above in Example 1.1 and 2 were made and tested in GAL4-driven lucifcrasc reporter assays as described in Example 2. The effect of an amino acid substitution at amino acid residue 4S. 51. 52. 54. 92, 95, 96, 109, 120, 125, 219, 223, 234, or 238 of SRQ ID NO: 1 on the activity of the mutated CfEcR-DEF receptor is presented in tables 8a and 8b.
Table Ha. CfEcR mutants that show decreased diacylhydrazine activity.
(Table Remove)
As seen in Tables 8a and 8b, the activity of diacylhydrazines was decreased significantly when the CfEeR ligand binding domain was mutated at amino acid residues 48, 51, 52, 54, 92, 95, 96, 109, 120, 1 25, 219, 223, 234, or 238 of SEQ ID NO: 1, indicating that these residues are important residues in the Iffgnad binding pocket of CfEcR.
KXAMPLK9
This Example describes the identification of additional CfEcR ligand binding domain substitution mutants ihat are generally tetrahydroquinoline responsive that exhibit increased activity in response to tetrahydraquionline ligands. In an effort to identify substitution mutations in the CfEcR that increase tetrahydroquinoline ligand activity, Applicants mutated specific amino acid residues and created GAE4/mutant CfEcR-DEF cDNA gene expression cassettes as described in Example 1 using PCR-mediated site-directed mutagencsis kit. The mutated and the WT cDNAs corresponding to the various switch constructs outlined above in Example 1.1 and 1.2 were made and tested in GAE4-driven liciferase reporter assays as described in Example 2. The effect of an amino acid substitution at amino acid residue 1 10 or 128 of SEQ ID NO: 1 or the double amino acid substitution at amino acid residues 1 10 and 128 of SEQ ID NO: 1 one the activity of the mutated CfficR-DEF receptor is presented in table 9.

Table 9. CiEcR mutants that show increased tetrahydroquinoline activity
(Table Remove)
ligand binding domain was mutated at amino acid residues 110 or 128 of SEQ ID NO: 1 or doubled imitated at amino acid residues 110 and 128 of SEQ ID NO: 1 or doubled mutated at amino acid residues 1 10 and 128 of SEQ ID NO: 1, indicating that these residues are important residues in the ligand binding pocket CfEcR.
EXAMPLE 10
Ibis Example describes the identification of additional CfEcR ligand binding domain substitution mutants that are differentially responsive to diacylhydrazine ligands. These mutants exhibit a general decrease in diacylhydra/.inc activity; however they are selectively responsive to a specific diacylhydra/.inc ligand. In an effort to identify substitution mutations in the CfEcR, Applicants mutated specific ammo acid residues and created GAL4/mutantCfEcR-DEF cDNA gene expression cassettes as described in Example 1 using PCR-mediated site-directed mutagenesis kit. The mutated and the WT cDNAs corresponding to the various switch constructs outlined above in Example 1.1 and 1.2 were made and tested in GAE4-driven luciferase reporter assays as described in Example 2. The effect of an
ammo acid substitution at amino acid residue 52, 95, 109, 125 or 132 of SEQ ID NO: 1 on the activity of the mutated CtticR DEF receptor is presented in Tables lOa and lOb.
liable lOa. CfHcR mutants that show decreased diacylhydrazine activity and increased activity in response to diacylhydra/ine RG-115855 (Table Remove)

'[able lOb. Cll-cR mutants that show decreased RG-102240 diacylhydrazine activity and increased activity in response to other diacylhydra/ines.
As seen in Tables lOa and lOb, the activity of diacylhydrazines was differentially affected when CfKcR ligand binding domain was mutated at amino acid residues 52, 95, 109, 125, or 132 of SBQ ID NO: 1, indicating that these residues are important residues in the ligand binding poeket CfEcR.
The present invention is not to be limited in scope by the specific embodiment described herein indeed, various modifications of the invention in addition to those described herein will become apparent to those skilled in the art from the foregoing description and the accompanying figures. Such modifications rire intended to fall within the scope of the appended claims.
It is further to be understood that all base sizes or amino acid sizes, and all molecular weight or molecular mass values, given for nucleic acids or polypeptides are approximate, and are provided for
description.

We claim
A gene expression modulation system comprising a gene expression cassette that is capable of being expressed in a host cell, the gene expression cassette comprising a polynucleotide that encodes a polypeptide comprising:
i) a transactivation domain;
ii) a DNA-binding domain that recognizes a response element associated with gene whose expression is to be modulated; and
iii) a group II nuclear receptor ligand binding domain comprising at least one mutation, wherein the mutation is at a position equivalent to or analogous to amino acid residues selected from the group consisting of :a) at least one of 48, 51, 52, 54, 92, 95, 96, 109, 110, 119, 120, 125, 128, 132, 219, 223, 234, and 238 of SEQ ID NO: l,b) both 96 and 1 19 of SEQ ID NO: 1, c ) both 110 and 128 of SEQ ID NO: l,d) both 52 and 1 10 of SEQ ID NO: l,c)both 107, 110, and 127 of SEQ ID NO: 1, f) both 52, 107 and 127 of SEQ ID NO:1 and g) both 107, and 127 and 259 of SEQ ID NO: 1, or any combination thereof.
2. The gene expression modulation system according to claim 1, further comprising a second
nuclear receptor ligand binding domain selected from the group consisting of a vertebrate retinoid X
receptor ligand binding domain, an invertebrate retinoid X receptor ligand binding domain, an
ultraspiraclc protein ligand binding domain, and a chimeric ligand binding domain comprising two
polypeptide fragments, wherein the first polypeptide fragment is from a vertebrate retinoid X receptor
ligand binding domain, an invertebrate retinoid X receptor ligand binding domain , or an ultraspiracle
protein ligand binding domain, and the second polypeptide fragment is from a different vertebrate
rciinoid X receptor ligand binding domain, invertebrate retinoid X receptor ligand binding domain, or
ultraspiraccl protein ligand binding domain.
3. A gene expression modulation system comprising:
a) a first gene expression cassette that is capable of being expressed in a host cell
comprising a polynucleotide that encodes a first polypeptide comprising:
i) a DNA-binding domain that recognizes a response element associated with a gene
whose expression is to be modulated; and ii) a nuclear receptor ligand binding domain; and
b) a second gene expression cassette that is capable of being expressed in the host cell
comprising a polynucleotide that encodes a second polypeptide comprising:
i) a transactvation domain; and
ii) a nuclear receptor ligand binding domain
wherein one of the nuclear receptor ligand binding domains is a Group H nuclear receptor ligand binding domain comprising at least one mutation, wherein the mutation is at a position equivalent to or analogous to amino acid residues selected from the group consisting of: a) at least one of 48, 51, 52, 54, 92, 95. 96, 109, 110, 119, 120, 125, 128, 132, 219, 223, 234 and 238 of SEQ ID NO: l,b) both 96 and 119oi'SKQ ID NO: l,c)both 110 and 128 of SEQ ID NO: I,d)bothof52 and 110 of SEQ ID NO: l,c) all three of 107, 110, and 127 of SEQ ID NO: 1 f) all three of 52, 107, and 127 of SEQ ID NO: 1 and g) all three of 107, 127, and 259 of SEQ ID NO: 1, or any combination thereof.

4. The gene expression modulation system according to claim 1 or claim 1 or claim 3, wherein the
Group 11 nuclear receptor ligand blinding domain is from a Group H nuclear receptor selected from the
group consisting of an ccdysone receptor, a ubiquitous receptor, an orphan receptor 1, a NER-1, a
^tcroid hormone nuclear receptor 1, a retinoid X receptor interacting protein-15, a liver X receptor [i, a steroid hormone receptor like protein , a liver X receptor, a liver X receptor a. a farnesoid X receptor, a receptor interacting protein 14, and a farnesol receptor.
5. The gene expression modulation system according to claim 4, wherein the Group H nuclear
receptor ligand binding domain is encoded by a polynucleotide comprising at least one mutation that
results in at lest one mutation of an amino acid residue, wherein the amino acid residue is at a position
equivalent to or analogous to: a) at least one of amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 110,
1 19. 120, 125, 128, 132, 219, 223, 234, and 238 of SEQ ID NO: l,b) both amino acid residues 96 and
1 19 ol'SHQ ID NO: 1 ,c) both amino acid residues 110 and 128 of SEQ ID NO: l,d) both amino acid
residues 52 and 110 of SEQ ID NO: 1, e) all three amino acid residues 107, 110, and 127 of SEQ ID
NO: 1, f) all three amino acid residues 52, 107 and 127 of SEQ ID NO: 1, or g) all three amino acid
residues 107 and 127 and 259 of SEQ ID NO: 1, or any combination thereof.
6. The gene expression modulation system according to claim 5, wherein the Group H nuclear
receptor ligand binding domain comprising a substitution mutation is an eedysone receptor ligand
binding domain.
7. The gene expression modulation system according to claim 6, wherein the mutation is selected
from the group consisting of F48Y, E48W, E48L, F48N, F48R, F48K, 151M, 15IN, 15IE, T52M, T52V,
T52I., T52H, T52P,T52R, T52W,T52G, T52Q, M54W, M54T, M92E, M92E, R95H, R95M, R95W.
V%1.. V96W, V96S, V96E, E109W, F109P, F109L, F109M, F109N, Al 10E, A110N, Al 10W, Nl 19F,
Y120W. Y120M, M125P, M125R, M125E, M125L, M125C, M125W, M125G, M125I, M125N,
M125S, Ml25V, V128E, E132M,L132N, L132V, L132E,M219K, M219W, M219Y, M219A,
12231U223R, E223Y, E234M, E2341, L234R, L234W, W238P, W238E, W238Y, W238M, W238E,
N119F'V96T, V128F/A110P, T52V/A110P, V107I/Y127E/T52V, V1071/Y127E/G259 and
V1071 /Y127E/A11 OP of SEQ ID NO: 1.
X. The gene expression modulation system according to claim 1 or claim 3, wherein the DNA-binding domain is selected from the group consisting of an eedysone receptor DNA-binding domain, a GA1.4 DNA-binding domain, and a LexA DNA-binding domain.
9. The gene expression modulation system according to claim 1 or claim 3, wherein the
transaetivation domain, is selected from the group consisting of an eedysone receptor transactivation
domain, a VP16 transactivation domain, B42 acidic activator transactivation domain, and a p65
transaetivation domain.
10. An isolate polynucleotide encoding a Group H nuclear receptor ligand binding domain
comprising at least one mutation, wherein the isolated polynucleotide comprises at least one mutation
that results in at least one mutation of an amino acid residue at a position equivalent to or analogous to
a) at lest one of amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 110, 119, 120, 125, 128, 132, 219,
223. 234. and 238 ofSHQ ID NO: 1, b) both amino acid residues 96 and 119 of SEQ ID NO 1, c) both
amino acid residues 1 10 and 128 of SEQ ID NO: 1, d) both amino acid residues 52 and 110 of SEQ ID
NO: 1, e) all three amino acid residues 107, 110, and 127 of SEQ ID NO: 1,0 all three amino acid
residues 52, 107 and 127 of SEQ ID NO: 1 or g) all three amino acid residues 107, 127 and 259 of SEQ
ID NO: 1 or any combination thereof.

i I. The isolated polynucleotide according to claim 10, wherein the mutation results in a mutation selected from the group consisting of F48Y, F48W, F48L, F48N, F48R, F48K, I51M, 151N, 151 L T52V1, T52V, T52E, T52E, T52P,T52R, T52W,T52G, T52Q, M54W, M54T, M92L, M92K, R95IT
^95V1, R95W, V96L, V96W, V96S, V96E, F109W, F109P, F109L, F109M, F109N, Al 10E, Al ION.
".AllOW, N119F, Y120W, Y120M, M125P, M125R, M125E, M125L, M125C, M125W, M125G, V11251, M125N, M125S, M125V, V128F, L132M,L132N, L132V, L132E,M219K, M219W, M219Y, V1219A, E223K,E223R, L223Y, L234M, L234I, L234R, L234W, W238P, W238E, W238Y, W238M, W238L NM19F/V96T, V128F/A110P, T52V/A110P, V107I/Y127E/T52V, V1071/Y127E/G259 and V1 071 /Y1 27E/A1 1 OP of SHQ ID NO: 1.
1 2. An expression vector comprising the isolated polynucleotide of claim 10 operatively linked to a
transcription regulatory clement.
13. An isolated host cell comprising the expression vector of claim 12, wherein the transcription
regulatory element is operative in the host cell.
14. An isolated polypeptide encoded by isolated polynucleotide according to claim 10.
15. An isolated polypeptide encoded by the isolated polypeptide comprising a group H nuclear
receptor ligancl blinding domain comprising at least one mutation, wherein the mutation is at a position
equivalent to or analogous to a) at least one of amino acid residue 48, 51, 52, 54, 92, 95, 96, 109, 110,
1 19. 120, 125, 128, 132, 219, 223, 234 and 238 of SEQ ID NO 1, b) both amino acid residues 96 and
1 19 of SHQ ID NO: l,c) both amino acid residues 110 and 128 of SEQ ID NO: 1, d) both amino acid
residues 52 and 1 10 of SEQ ID NO: 1, e) all three amino acid residues 107, 110, and 127 of SEQ ID
NO: 1.1) all three amino acid residues 52, 107 and 127 of SEQ ID NO: 1 or g) all three amino acid
residues 107, 127 and 2f 9 of SEQ ID NO: 1, or any combination thereof.
1 6. The isolated polypeptide according to claim 15, wherein the mutation is selected from the group consisting of F48Y, F43W, F48L, F48N, F48R, F48K, 151M, 15IN, 15IE, T52M, T52V, T52L, T52E, T52P,T52R. T52W,T52G, T52Q, M54W, M54T, M92L, M92E, R95H, R95M, R95W, V96E, V96W, V96S, V96E, F109W, F109P, F109E, F109M, F109N, A110E, A110N, A110W, N119F, Y120W, Y120M. V1125P, M125R, M125E, M125L, M125C, M125W, M125G, M125I, M125N, M125S, VI125V, V128H, L132M,L132N, E132V, L132E,M219K, M219W, M219Y, M219A, L223K,L223R, L223Y. L234V1, L234I. L234R, L234W, W238P, W238E, W238Y, W238M, W238E, N119F/V96T, V12SF Al 10P, T52V/A110P, V107I/Y127E/T52V, V1071/Y127E/G259 and V1071/Y127E/A110P of SHQ ID NO:1.
1 7. A method of modulating the expression of a gene in a host cell comprising the steps of:
a) Introducing into the host cell the gene expression of gene expression modulation system
according to claim 1 or claim 3; and
b) introducing into the host cell a ligand;
wherein the gene to be modulated is a component of a gene expression cassette comprising:
i) a response element recognized by the DNA binding domain; ii) a promoter that is activated by the transactivation domain; and iii) a gene whose expression is to be modulated;

\
hereby upon introduction of the lingad into the host cell, expression of the gene of b)iii) is modulated.

S. The method according to claim 17, wherein the ligand is selected from the group 15 consisting of: a) a compound of the formula:

(Figure Remove)


Wherein:
I: is a branched (C4-Ci2)alkyl or branched (C4-Ci2) alkenyl containing a tertiary carbon or a cayno (IV C|2) alkyl containing a tertiary carbon;
R1 is 11, Me, ET, i-Pr, F, formyl, CF3, CFH2, CHC12, CH2F, CH2C1, CH2OH, CH2OMe, CH2CN, CN, C°CH, 1-propynyl, 2- propynyl, vinyl, OH, OMe, OEt, cyclopropyl, CF2CF3, CH=CHCN, allyl, a/ido, SCN, or SCHF2;
R2 is 11, Me, Ht, Pr, i-Pr, formyl, CF3, CHF2, CHC12, CH2F,CH2C12, CH2OH, CH2OMe, CH2CN, CN. C°C11, 1-propynl, 2-propynl, vinyl, Ac, f, Cl, OH, OMe, OEt, O-N-PR, OAC, NMe2, Net,, SMe, Set. SOCl'Y OCF2CF2H, COEt, cyclopropyl, CF2CF3, CH =CHCN, allyl, azido, OCF3, OCHF2. O-i-Pr, SCN. SCI i!;?, SOMe . NH-CN, OR joined with R3 and the phenyl carbon to which R2 and R3 arc attached to from an cthylcnedioxy, a dihydrofuryl ring with the oxygen adjacent to a phenyl carbon, or a dihydropyryl ring with the oxygen adjacent to phenyl carbon;
R3 is 11, lit, or joined with R2 and the phenyl carbons to which R2 and R3 are attached to from an ethylcncdioxy, a dihydrofuryl ring with the oxygen adjacent to phenyl carbon, or a dihydropyryl ring with the oxygen adjacent to a phenyl carbon.
R4 and R5- and R6 are independently H, Me, Et, F, Cl, Br, formly, CF3, CHF2, CHC12 , CH2F. CI bCL C11?O11, CN, C°CH, 1-propynyl, 2-propynyl, vinyl OMe, OEt, SMe, or Set.
b) a compound of the formula:

(Figure Remove)



Wherein:
Rl isCH2C!I3, CH3, or CH3; R2 is OCH3, OCH3, CH2CH3 or i-Pr; and R3 and R4 are CH3;
c) a compound of the formula:

(Figure Remove)

wherein:
Rl and R2 are F; and
R3 is 3-F-4-CH3-Ph or 3-CH3-4-F-Ph; and
d) an ecdysone, 20-hydroxyecdysone, ponasterone A, muristerone A, an oxysterol, a 22(R) hydroxydiolesterol, 24(S) hydroxycholesterol, 25-epoxycholoesterol. T0901317, 5-alpha-6-alpha-epo.\ycholesterol-3 suli'ate, 7 kctocholesterol-3 sulfatc, franesol, a bile acid , a 1,1-bihosphonate ester, or
a juvenile hormone III.
19. The method according to claim 18, further comprising introducing into the host cell a second
ligand. wherein the second ligand is 9-cis-retinoic acid or a synthetic analog of retinoic acid.
20. An isolated host cell comprising the gene expression modulation system according to claim 1 or
el aim 3.
21. A non-human organism comprising the host cell of claim 20.

Documents:


Patent Number 259094
Indian Patent Application Number 7237/DELNP/2006
PG Journal Number 09/2014
Publication Date 28-Feb-2014
Grant Date 25-Feb-2014
Date of Filing 30-Nov-2006
Name of Patentee INTREXON CORPORATION
Applicant Address 1872 PRATT DRIVE, SUITE 1400, BLACKSBURG, VIRGINIA, 24060, UNITED STATES OF AMERICA
Inventors:
# Inventor's Name Inventor's Address
1 PALLI SUBBA REDDY 2236 LOVELL CT., LEXINGTON, KY 40513, UNITED STATES OF AMERICA
2 KUMAR MOHAN BASAVARAJU 222 WELLESLEY ST., E, APT. 207, TORONTO, ONTARIO M4X IG4, CANADA
PCT International Classification Number A61K 31/16
PCT International Application Number PCT/US2005/015089
PCT International Filing date 2005-05-02
PCT Conventions:
# PCT Application Number Date of Convention Priority Country
1 11/118,855 2005-04-29 U.S.A.
2 60/567,294 2004-04-30 U.S.A.
3 60/609,424 2004-09-13 U.S.A.