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(-) Description

Title :  0072 PARTIAL AGONIST PPAR GAMMA COCRYSTAL
 
Authors :  M. V. Milburn
Date :  07 May 99  (Deposition) - 27 May 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Thiazolidinone, Ligand-Binding Domain, Nuclear Receptor, Orphan Receptor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. L. Oberfield, J. L. Collins, C. P. Holmes, D. M. Goreham, J. P. Cooper, J. E. Cobb, J. M. Lenhard, E. A. Hull-Ryde, C. P. Mohr, S. G. Blanchard, D. J. Parks, L. B. Moore, J. M. Lehmann, K. Plunket, A. B. Miller, M. V. Milburn, S. A. Kliewer, T. M. Willson
A Peroxisome Proliferator-Activated Receptor Gamma Ligand Inhibits Adipocyte Differentiation.
Proc. Natl. Acad. Sci. Usa V. 96 6102 1999
PubMed-ID: 10339548  |  Reference-DOI: 10.1073/PNAS.96.11.6102
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA)
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: LIGAND BINDING DOMAIN, RESIDUES 207-476
    Gene: HPPARGAMMA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: 0072 PARTIAL AGONIST COCRYSTAL
    Other Details - Source: PLASMID IS PRSET A

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
10724Ligand/Ion(+/-)(2S,5S)-3-(4-(4-CARBOXYPHENYL)BUTYL)-2-HEPTYL-4-OXO-5-THIAZOLIDINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:255 , GLU A:259 , PHE A:264 , HIS A:266 , ALA A:278 , ARG A:280 , ILE A:281 , CYS A:285 , ARG A:288 , ILE A:326 , TYR A:327 , MET A:329 , LEU A:340 , ILE A:341 , SER A:342 , PHE A:360 , PHE A:363 , MET A:364BINDING SITE FOR RESIDUE 072 A 1
2AC2SOFTWAREGLU B:259 , PHE B:264 , ILE B:267 , ALA B:278 , ARG B:280 , ILE B:281 , PHE B:282 , CYS B:285 , ARG B:288 , SER B:289 , TYR B:327 , MET B:329 , LEU B:330 , LEU B:340 , ILE B:341 , SER B:342 , PHE B:363 , MET B:364BINDING SITE FOR RESIDUE 072 B 2
3AC3SOFTWAREGLU C:259 , PHE C:264 , HIS C:266 , ILE C:267 , ALA C:278 , ARG C:280 , ILE C:281 , CYS C:285 , ARG C:288 , ILE C:326 , TYR C:327 , MET C:329 , LEU C:330 , LEU C:333 , ILE C:341 , SER C:342 , PHE C:360 , MET C:364BINDING SITE FOR RESIDUE 072 C 3
4AC4SOFTWAREGLU D:259 , ILE D:267 , THR D:268 , PRO D:269 , ALA D:278 , ARG D:280 , ILE D:281 , PHE D:282 , CYS D:285 , ARG D:288 , SER D:289 , GLU D:295 , ILE D:326 , TYR D:327 , LEU D:333 , LEU D:340 , LEU D:353 , LEU D:356 , PHE D:363 , MET D:364BINDING SITE FOR RESIDUE 072 D 4

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PRG)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PRG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PRG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PRG)

(-) Exons   (0, 0)

(no "Exon" information available for 4PRG)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:270
                                                                                                                                                                                                                                                                                                              
               SCOP domains d4prga_ A: Peroxisome proliferator activated receptor gamma, PPAR-gamma                                                                                                                                                                                                        SCOP domains
               CATH domains 4prgA00 A:207-476 Retinoid X Receptor                                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhh............eee..hhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhh....hhh..hhhhhhhhhhhhhhhhhhhhhhh....eeeehhh.eeeehhhhh.....hhh..hhhhhhhhhhhhh...hhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4prg A 207 ESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDL 476
                                   216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476


Chain B from PDB  Type:PROTEIN  Length:270
                                                                                                                                                                                                                                                                                                              
               SCOP domains d4prgb_ B: Peroxisome proliferator activated receptor gamma, PPAR-gamma                                                                                                                                                                                                        SCOP domains
               CATH domains 4prgB00 B:207-476 Retinoid X Receptor                                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhhhh..........eee..hhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhh...hhh..hhhhhhhhhhhhhhhhhhhhhhh....eeee....eeeehhhhh...hhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh.......hhhhhh..hhhhhhhhhhhhhh.hhhhhh.......hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4prg B 207 ESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDL 476
                                   216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476


Chain C from PDB  Type:PROTEIN  Length:270
                                                                                                                                                                                                                                                                                                              
               SCOP domains d4prgc_ C: Peroxisome proliferator activated receptor gamma, PPAR-gamma                                                                                                                                                                                                        SCOP domains
               CATH domains 4prgC00 C:207-476 Retinoid X Receptor                                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhhhhh..............hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhh....eee......eeehhhhhh....hhh..hhhhhhhhhhhhh...hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4prg C 207 ESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDL 476
                                   216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476


Chain D from PDB  Type:PROTEIN  Length:270
                                                                                                                                                                                                                                                                                                              
               SCOP domains d4prgd_ D: Peroxisome proliferator activated receptor gamma, PPAR-gamma                                                                                                                                                                                                        SCOP domains
               CATH domains 4prgD00 D:207-476 Retinoid X Receptor                                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhh.............eee..hhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhh....eeee....eeee...............hhhhhhhhhhhhh...hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhh......hhhhhh..hhhhhhhhhhhhhhhhhh..........hhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4prg D 207 ESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDL 476
                                   216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PRG)

(-) Gene Ontology  (107, 107)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PPARG_HUMAN | P37231: 1fm6 1fm9 1i7i 1k74 1knu 1nyx 1prg 1rdt 1wm0 1zeo 1zgy 2ath 2f4b 2fvj 2g0g 2g0h 2gtk 2hfp 2hwq 2hwr 2i4j 2i4p 2i4z 2om9 2p4y 2pob 2prg 2q59 2q5p 2q5s 2q61 2q6r 2q6s 2q8s 2qmv 2vsr 2vst 2vv0 2vv1 2vv2 2vv3 2vv4 2xkw 2yfe 2zk0 2zk1 2zk2 2zk3 2zk4 2zk5 2zk6 2zno 2zvt 3ads 3adt 3adu 3adv 3adw 3adx 3an3 3an4 3b0q 3b0r 3b1m 3b3k 3bc5 3cdp 3cds 3cs8 3cwd 3d6d 3dzu 3dzy 3e00 3et0 3et3 3fej 3fur 3g9e 3gbk 3h0a 3ho0 3hod 3ia6 3k8s 3kmg 3lmp 3noa 3osi 3osw 3pba 3po9 3prg 3qt0 3r5n 3r8a 3r8i 3s9s 3sz1 3t03 3ty0 3u9q 3v9t 3v9v 3v9y 3vjh 3vji 3vn2 3vso 3vsp 3wj4 3wj5 3wmh 3x1h 3x1i 4a4v 4a4w 4ci5 4e4k 4e4q 4em9 4ema 4f9m 4fgy 4hee 4jaz 4jl4 4l96 4l98 4o8f 4oj4 4pvu 4pwl 4r06 4r2u 4r6s 4xld 4xta 4xuh 4xum 4y29 4yt1 5azv 5dsh 5dv3 5dv6 5dv8 5dvc 5dwl 5f9b 5gtn 5gto 5gtp 5hzc 5ji0 5tto 5two

(-) Related Entries Specified in the PDB File

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