HEADER TRANSCRIPTION 22-OCT-07 3B3K TITLE CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN PPARGAMMA AND THE FULL TITLE 2 AGONIST LT175 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 223-504; COMPND 5 SYNONYM: PPAR-GAMMA; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PPARG, NR1C3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS BUNDLE OF ALPHA-HELICES, SMALL FOUR-STRNDED BETA-SHEET, ACTIVATOR, KEYWDS 2 ALTERNATIVE SPLICING, DIABETES MELLITUS, DISEASE MUTATION, DNA- KEYWDS 3 BINDING, METAL-BINDING, NUCLEUS, OBESITY, PHOSPHORYLATION, KEYWDS 4 POLYMORPHISM, RECEPTOR, TRANSCRIPTION, TRANSCRIPTION REGULATION, KEYWDS 5 ZINC, ZINC-FINGER EXPDTA X-RAY DIFFRACTION AUTHOR G.POCHETTI,R.MONTANARI,F.MAZZA,F.LOIODICE,G.FRACCHIOLLA,M.CRESTANI, AUTHOR 2 C.GODIO REVDAT 3 01-NOV-23 3B3K 1 REMARK SEQADV REVDAT 2 30-DEC-08 3B3K 1 JRNL VERSN REVDAT 1 28-OCT-08 3B3K 0 JRNL AUTH R.MONTANARI,F.SACCOCCIA,E.SCOTTI,M.CRESTANI,C.GODIO, JRNL AUTH 2 F.GILARDI,F.LOIODICE,G.FRACCHIOLLA,A.LAGHEZZA,P.TORTORELLA, JRNL AUTH 3 A.LAVECCHIA,E.NOVELLINO,F.MAZZA,M.ASCHI,G.POCHETTI JRNL TITL CRYSTAL STRUCTURE OF THE PEROXISOME PROLIFERATOR-ACTIVATED JRNL TITL 2 RECEPTOR GAMMA (PPARGAMMA) LIGAND BINDING DOMAIN COMPLEXED JRNL TITL 3 WITH A NOVEL PARTIAL AGONIST: A NEW REGION OF THE JRNL TITL 4 HYDROPHOBIC POCKET COULD BE EXPLOITED FOR DRUG DESIGN JRNL REF J.MED.CHEM. V. 51 7768 2008 JRNL REFN ISSN 0022-2623 JRNL PMID 19053776 JRNL DOI 10.1021/JM800733H REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.T.NOLTE,G.B.WISELY,S.WESTIN,J.E.COBB,M.H.LAMBERT, REMARK 1 AUTH 2 R.KUROKAWA,M.G.ROSENFELD,T.M.WILLSON,C.K.GLASS,M.V.MILBURN REMARK 1 TITL LIGAND BINDING AND CO-ACTIVATOR ASSEMBLY OF THE PEROXISOME REMARK 1 TITL 2 PROLIFERATOR-ACTIVATED RECEPTOR-GAMMA REMARK 1 REF NATURE V. 395 137 1998 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 9744270 REMARK 1 DOI 10.1038/25931 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.T.GAMPE,V.G.MONTANA,M.H.LAMBERT,A.B.MILLER,R.K.BLEDSOE, REMARK 1 AUTH 2 M.V.MILBURN,S.A.KLIEWER,T.M.WILLSON,H.E.XU REMARK 1 TITL ASYMMETRY IN THE PPARGAMMA/RXRALPHA CRYSTAL STRUCTURE REMARK 1 TITL 2 REVEALS THE MOLECULAR BASIS OF HETERODIMERIZATION AMONG REMARK 1 TITL 3 NUCLEAR RECEPTORS REMARK 1 REF MOL.CELL V. 5 545 2000 REMARK 1 REFN ISSN 1097-2765 REMARK 1 PMID 10882139 REMARK 1 DOI 10.1016/S1097-2765(00)80448-7 REMARK 1 REFERENCE 3 REMARK 1 AUTH H.E.XU,M.H.LAMBERT,V.G.MONTANA,K.D.PLUNKET,L.B.MOORE, REMARK 1 AUTH 2 J.L.COLLINS,J.A.OPLINGER,S.A.KLIEWER,R.T.GAMPE,D.D.MCKEE, REMARK 1 AUTH 3 J.T.MOORE,T.M.WILLSON REMARK 1 TITL STRUCTURAL DETERMINANTS OF LIGAND BINDING SELECTIVITY REMARK 1 TITL 2 BETWEEN THE PEROXISOME PROLIFERATOR-ACTIVATED RECEPTORS REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 98 13919 2001 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 11698662 REMARK 1 DOI 10.1073/PNAS.241410198 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.9 REMARK 3 NUMBER OF REFLECTIONS : 17586 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.316 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1746 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4332 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 187 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.210 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3B3K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1000045034. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR (SI REMARK 200 111 AND SI 220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20634 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.36600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1PRG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8M NACITRATE, 0.15M TRIS, PH8.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 46.57200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.78450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.57200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.78450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -46.57200 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 30.78450 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 191 REMARK 465 SER A 192 REMARK 465 HIS A 193 REMARK 465 MET A 194 REMARK 465 ALA A 195 REMARK 465 GLU A 196 REMARK 465 ILE A 197 REMARK 465 SER A 198 REMARK 465 SER A 199 REMARK 465 ASP A 200 REMARK 465 ILE A 201 REMARK 465 ASP A 202 REMARK 465 GLN A 203 REMARK 465 LEU A 204 REMARK 465 ASN A 205 REMARK 465 PRO A 206 REMARK 465 GLY B 191 REMARK 465 SER B 192 REMARK 465 HIS B 193 REMARK 465 MET B 194 REMARK 465 ALA B 195 REMARK 465 GLU B 196 REMARK 465 ILE B 197 REMARK 465 SER B 198 REMARK 465 SER B 199 REMARK 465 ASP B 200 REMARK 465 ILE B 201 REMARK 465 ASP B 202 REMARK 465 GLN B 203 REMARK 465 LEU B 204 REMARK 465 ASN B 205 REMARK 465 PRO B 206 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 LYS A 263 REMARK 475 PHE A 264 REMARK 475 LYS A 265 REMARK 475 HIS A 266 REMARK 475 ILE A 267 REMARK 475 THR A 268 REMARK 475 PRO A 269 REMARK 475 LEU A 270 REMARK 475 GLN A 271 REMARK 475 GLU A 272 REMARK 475 GLN A 273 REMARK 475 SER A 274 REMARK 475 ASP A 475 REMARK 475 LEU A 476 REMARK 475 GLU B 259 REMARK 475 ASP B 260 REMARK 475 ILE B 267 REMARK 475 THR B 268 REMARK 475 PRO B 269 REMARK 475 LEU B 270 REMARK 475 GLN B 271 REMARK 475 GLU B 272 REMARK 475 GLN B 273 REMARK 475 SER B 274 REMARK 475 ARG B 357 REMARK 475 LYS B 474 REMARK 475 ASP B 475 REMARK 475 LEU B 476 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU B 207 CB CG CD OE1 OE2 REMARK 480 LYS B 358 CB CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 529 O HOH A 535 2.09 REMARK 500 O HOH A 533 O HOH A 535 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 289 CA SER A 289 CB -0.114 REMARK 500 SER A 289 CB SER A 289 OG -0.097 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 462 O - C - N ANGL. DEV. = -17.2 DEGREES REMARK 500 MET A 463 CA - C - N ANGL. DEV. = -21.6 DEGREES REMARK 500 MET A 463 O - C - N ANGL. DEV. = 16.5 DEGREES REMARK 500 SER A 464 C - N - CA ANGL. DEV. = -26.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 241 91.88 -64.47 REMARK 500 THR A 242 58.46 -105.77 REMARK 500 LYS A 244 93.85 -175.37 REMARK 500 ASP A 251 -179.94 -174.08 REMARK 500 LYS A 263 41.58 -89.36 REMARK 500 HIS A 266 -171.17 -69.35 REMARK 500 PRO A 269 -139.18 -71.82 REMARK 500 LEU A 270 151.36 -42.18 REMARK 500 GLU A 272 -73.00 -42.40 REMARK 500 GLN A 273 17.99 -68.34 REMARK 500 SER A 274 72.79 -162.69 REMARK 500 LYS A 275 84.26 51.31 REMARK 500 GLU A 276 164.25 -45.18 REMARK 500 LYS A 336 -25.19 -38.61 REMARK 500 SER A 342 71.51 41.96 REMARK 500 GLU A 343 63.33 39.80 REMARK 500 ARG A 357 135.44 -38.12 REMARK 500 LYS A 358 -50.85 -13.84 REMARK 500 SER A 394 -84.21 -69.76 REMARK 500 HIS A 425 54.41 -142.22 REMARK 500 ASP A 462 41.18 -95.77 REMARK 500 HIS A 466 137.20 -31.83 REMARK 500 ASP A 475 -168.74 -58.35 REMARK 500 LEU B 237 -152.98 -55.79 REMARK 500 LYS B 240 -84.79 -65.96 REMARK 500 THR B 241 67.39 28.51 REMARK 500 LYS B 244 79.24 -179.94 REMARK 500 MET B 257 48.35 -62.19 REMARK 500 LYS B 263 84.62 -59.79 REMARK 500 LYS B 265 75.42 -109.91 REMARK 500 HIS B 266 -57.22 -167.66 REMARK 500 LEU B 270 69.54 -154.52 REMARK 500 GLU B 272 84.22 172.50 REMARK 500 LYS B 275 143.88 69.70 REMARK 500 PRO B 304 109.37 -52.46 REMARK 500 SER B 342 85.50 51.86 REMARK 500 GLU B 343 21.88 44.46 REMARK 500 THR B 349 156.66 -48.85 REMARK 500 ARG B 357 159.38 -40.54 REMARK 500 SER B 394 -98.61 -77.17 REMARK 500 GLN B 430 21.79 48.06 REMARK 500 LYS B 457 18.30 -64.94 REMARK 500 LYS B 458 47.64 -140.72 REMARK 500 THR B 459 -71.24 -143.81 REMARK 500 THR B 461 -94.96 -152.48 REMARK 500 ASP B 462 109.15 -57.96 REMARK 500 PRO B 467 -80.59 -35.27 REMARK 500 TYR B 473 70.74 -110.10 REMARK 500 LYS B 474 -82.02 -51.57 REMARK 500 ASP B 475 -40.49 -147.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASP A 462 -26.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LRG A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PRG RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE APO-FORM REMARK 900 RELATED ID: 1FM9 RELATED DB: PDB REMARK 900 TERNARY COMPLEX OF PPARGAMMA WITH THE COACTIVATOR PEPTIDE AND THE REMARK 900 LIGAND GI262570 (FARGLITAZAR) REMARK 900 RELATED ID: 1K74 RELATED DB: PDB REMARK 900 PPARGAMMA/RXRALPHA HETERODIMER COMPLEX WITH THE LIGANDS GW409544 REMARK 900 AND 9-CIS-RETINOIC ACID DBREF 3B3K A 195 476 UNP P37231 PPARG_HUMAN 223 504 DBREF 3B3K B 195 476 UNP P37231 PPARG_HUMAN 223 504 SEQADV 3B3K GLY A 191 UNP P37231 EXPRESSION TAG SEQADV 3B3K SER A 192 UNP P37231 EXPRESSION TAG SEQADV 3B3K HIS A 193 UNP P37231 EXPRESSION TAG SEQADV 3B3K MET A 194 UNP P37231 EXPRESSION TAG SEQADV 3B3K GLY B 191 UNP P37231 EXPRESSION TAG SEQADV 3B3K SER B 192 UNP P37231 EXPRESSION TAG SEQADV 3B3K HIS B 193 UNP P37231 EXPRESSION TAG SEQADV 3B3K MET B 194 UNP P37231 EXPRESSION TAG SEQRES 1 A 286 GLY SER HIS MET ALA GLU ILE SER SER ASP ILE ASP GLN SEQRES 2 A 286 LEU ASN PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS SEQRES 3 A 286 HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR SEQRES 4 A 286 LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR SEQRES 5 A 286 ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU SEQRES 6 A 286 MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR SEQRES 7 A 286 PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE SEQRES 8 A 286 PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN SEQRES 9 A 286 GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL SEQRES 10 A 286 ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR SEQRES 11 A 286 GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU SEQRES 12 A 286 MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY SEQRES 13 A 286 PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO SEQRES 14 A 286 PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL SEQRES 15 A 286 LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA SEQRES 16 A 286 ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO SEQRES 17 A 286 GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP SEQRES 18 A 286 ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN SEQRES 19 A 286 HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN SEQRES 20 A 286 LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL SEQRES 21 A 286 GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SEQRES 22 A 286 SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU SEQRES 1 B 286 GLY SER HIS MET ALA GLU ILE SER SER ASP ILE ASP GLN SEQRES 2 B 286 LEU ASN PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS SEQRES 3 B 286 HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR SEQRES 4 B 286 LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR SEQRES 5 B 286 ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU SEQRES 6 B 286 MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR SEQRES 7 B 286 PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE SEQRES 8 B 286 PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN SEQRES 9 B 286 GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL SEQRES 10 B 286 ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR SEQRES 11 B 286 GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU SEQRES 12 B 286 MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY SEQRES 13 B 286 PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO SEQRES 14 B 286 PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL SEQRES 15 B 286 LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA SEQRES 16 B 286 ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO SEQRES 17 B 286 GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP SEQRES 18 B 286 ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN SEQRES 19 B 286 HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN SEQRES 20 B 286 LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL SEQRES 21 B 286 GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SEQRES 22 B 286 SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU HET LRG A 1 24 HETNAM LRG (2S)-2-(BIPHENYL-4-YLOXY)-3-PHENYLPROPANOIC ACID FORMUL 3 LRG C21 H18 O3 FORMUL 4 HOH *187(H2 O) HELIX 1 1 GLU A 207 PHE A 226 1 20 HELIX 2 2 THR A 229 THR A 238 1 10 HELIX 3 3 ASP A 251 GLY A 258 1 8 HELIX 4 4 GLU A 276 ILE A 303 1 28 HELIX 5 5 GLY A 305 LEU A 309 5 5 HELIX 6 6 ASP A 310 ALA A 331 1 22 HELIX 7 7 ARG A 350 LYS A 354 1 5 HELIX 8 8 PRO A 359 PHE A 363 5 5 HELIX 9 9 MET A 364 ALA A 376 1 13 HELIX 10 10 ASP A 380 LEU A 393 1 14 HELIX 11 11 ASN A 402 HIS A 425 1 24 HELIX 12 12 GLN A 430 GLU A 460 1 31 HELIX 13 13 HIS A 466 TYR A 473 1 8 HELIX 14 14 GLU B 207 PHE B 226 1 20 HELIX 15 15 THR B 229 LEU B 237 1 9 HELIX 16 16 ASP B 251 MET B 257 1 7 HELIX 17 17 GLU B 276 LYS B 301 1 26 HELIX 18 18 GLY B 305 LEU B 309 5 5 HELIX 19 19 ASP B 310 LEU B 333 1 24 HELIX 20 20 ARG B 350 SER B 355 1 6 HELIX 21 21 MET B 364 ALA B 376 1 13 HELIX 22 22 ASP B 380 LEU B 393 1 14 HELIX 23 23 ASN B 402 HIS B 425 1 24 HELIX 24 24 GLN B 430 LYS B 438 1 9 HELIX 25 25 LYS B 438 LYS B 457 1 20 HELIX 26 26 HIS B 466 GLU B 471 1 6 SHEET 1 A 4 PHE A 247 ILE A 249 0 SHEET 2 A 4 GLY A 346 THR A 349 1 O PHE A 347 N ILE A 249 SHEET 3 A 4 GLY A 338 ILE A 341 -1 N VAL A 339 O MET A 348 SHEET 4 A 4 MET A 334 ASN A 335 -1 N ASN A 335 O GLY A 338 SHEET 1 B 4 PHE B 247 ILE B 249 0 SHEET 2 B 4 GLY B 346 THR B 349 1 O PHE B 347 N ILE B 249 SHEET 3 B 4 GLY B 338 ILE B 341 -1 N ILE B 341 O GLY B 346 SHEET 4 B 4 MET B 334 ASN B 335 -1 N ASN B 335 O GLY B 338 SITE 1 AC1 13 PHE A 282 CYS A 285 GLN A 286 SER A 289 SITE 2 AC1 13 HIS A 323 ILE A 326 TYR A 327 LEU A 330 SITE 3 AC1 13 HIS A 449 LEU A 453 MET A 463 LEU A 469 SITE 4 AC1 13 TYR A 473 CRYST1 93.144 61.569 118.797 90.00 103.40 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010736 0.000000 0.002558 0.00000 SCALE2 0.000000 0.016242 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008653 0.00000