PDB Short entry for 2POB HEADER GENE REGULATION 26-APR-07 2POB TITLE PPARGAMMA LIGAND BINDING DOMAIN COMPLEXED WITH A FARGLITAZAR ANALOGUE TITLE 2 GW4709 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN; 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 KEYWDS PPARG, NUCLEAR RECEPTOR, PPAR, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR R.T.NOLTE REVDAT 7 03-APR-24 2POB 1 REMARK REVDAT 6 21-FEB-24 2POB 1 REMARK REVDAT 5 18-OCT-17 2POB 1 REMARK REVDAT 4 10-SEP-14 2POB 1 JRNL REVDAT 3 13-JUL-11 2POB 1 VERSN REVDAT 2 24-FEB-09 2POB 1 VERSN REVDAT 1 18-MAR-08 2POB 0 JRNL AUTH R.P.TRUMP,J.E.COBB,B.G.SHEARER,M.H.LAMBERT,R.T.NOLTE, JRNL AUTH 2 T.M.WILLSON,R.G.BUCKHOLTZ,S.M.ZHAO,L.M.LEESNITZER, JRNL AUTH 3 M.A.IANNONE,K.H.PEARCE,A.N.BILLIN,W.J.HOEKSTRA JRNL TITL COCRYSTAL STRUCTURE GUIDED ARRAY SYNTHESIS OF PPARGAMMA JRNL TITL 2 INVERSE AGONISTS JRNL REF BIOORG.MED.CHEM.LETT. V. 17 3916 2007 JRNL REFN ISSN 0960-894X JRNL PMID 17533125 JRNL DOI 10.1016/J.BMCL.2007.04.111 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 25923 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.300 REMARK 3 FREE R VALUE TEST SET COUNT : 875 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1296 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 62.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3962 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 221 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.33000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 0.51000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.39000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.375 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.217 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.770 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.923 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.889 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4129 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2786 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5578 ; 1.265 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6846 ; 0.900 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 505 ; 6.227 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 184 ;36.040 ;25.326 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 754 ;16.844 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;21.435 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 644 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4575 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 807 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1083 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3012 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2071 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2096 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 187 ; 0.157 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.030 ; 0.200 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 16 ; 0.199 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 43 ; 0.183 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.234 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2612 ; 0.580 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1018 ; 0.110 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4093 ; 0.939 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1687 ; 1.483 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1485 ; 2.179 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 207 A 475 REMARK 3 ORIGIN FOR THE GROUP (A): 13.4020 55.6070 16.9570 REMARK 3 T TENSOR REMARK 3 T11: -0.3468 T22: -0.1830 REMARK 3 T33: -0.4661 T12: 0.1031 REMARK 3 T13: 0.0189 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 2.5064 L22: 1.9500 REMARK 3 L33: 4.6470 L12: 0.2490 REMARK 3 L13: -0.1875 L23: -1.3522 REMARK 3 S TENSOR REMARK 3 S11: -0.3129 S12: -0.0831 S13: -0.0108 REMARK 3 S21: 0.2201 S22: 0.1768 S23: -0.2530 REMARK 3 S31: -0.5885 S32: 0.2208 S33: 0.1361 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 206 B 474 REMARK 3 ORIGIN FOR THE GROUP (A): 30.3050 33.8830 33.5140 REMARK 3 T TENSOR REMARK 3 T11: -0.3104 T22: -0.1476 REMARK 3 T33: -0.4887 T12: 0.1972 REMARK 3 T13: 0.1247 T23: 0.0639 REMARK 3 L TENSOR REMARK 3 L11: 3.0338 L22: 1.8098 REMARK 3 L33: 3.8331 L12: 0.0115 REMARK 3 L13: -0.0606 L23: -0.2082 REMARK 3 S TENSOR REMARK 3 S11: -0.0516 S12: -0.4791 S13: -0.1111 REMARK 3 S21: 0.2519 S22: 0.0334 S23: 0.1627 REMARK 3 S31: 0.1344 S32: 0.4484 S33: 0.0182 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2POB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000042600. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26825 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 24.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : 0.05200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.9700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.48300 REMARK 200 R SYM FOR SHELL (I) : 0.48300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.610 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PPARGAMMA LBD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES AND 1.4M SODIUM CITRATE, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 46.45800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.00300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.45800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 31.00300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.5 KCAL/MOL 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 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 PRO A 206 REMARK 465 THR A 241 REMARK 465 THR A 242 REMARK 465 ASP A 243 REMARK 465 PHE A 264 REMARK 465 LYS A 265 REMARK 465 HIS A 266 REMARK 465 ILE A 267 REMARK 465 THR A 268 REMARK 465 PRO A 269 REMARK 465 LEU A 270 REMARK 465 GLN A 271 REMARK 465 GLU A 272 REMARK 465 GLN A 273 REMARK 465 SER A 274 REMARK 465 LEU A 476 REMARK 465 TYR A 477 REMARK 465 LYS B 240 REMARK 465 THR B 241 REMARK 465 THR B 242 REMARK 465 ASP B 243 REMARK 465 LYS B 244 REMARK 465 GLU B 259 REMARK 465 ASP B 260 REMARK 465 LYS B 261 REMARK 465 ILE B 262 REMARK 465 LYS B 263 REMARK 465 PHE B 264 REMARK 465 LYS B 265 REMARK 465 HIS B 266 REMARK 465 ILE B 267 REMARK 465 THR B 268 REMARK 465 PRO B 269 REMARK 465 LEU B 270 REMARK 465 GLN B 271 REMARK 465 GLU B 272 REMARK 465 ASP B 462 REMARK 465 MET B 463 REMARK 465 SER B 464 REMARK 465 ASP B 475 REMARK 465 LEU B 476 REMARK 465 TYR B 477 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 244 CG CD CE NZ REMARK 470 MET A 252 CG SD CE REMARK 470 LYS A 263 CG CD CE NZ REMARK 470 LYS A 275 CG CD CE NZ REMARK 470 LYS A 373 CD CE NZ REMARK 470 LYS A 474 CG CD CE NZ REMARK 470 LYS B 216 CG CD CE NZ REMARK 470 LYS B 232 CG CD CE NZ REMARK 470 LYS B 275 CG CD CE NZ REMARK 470 LYS B 354 CG CD CE NZ REMARK 470 LYS B 457 CG CD CE NZ REMARK 470 LYS B 458 CG CD CE NZ REMARK 470 LEU B 465 CG CD1 CD2 REMARK 470 LYS B 474 CG CD CE NZ 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 ASP B 337 CG ASP B 337 OD2 0.173 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 238 48.80 -96.28 REMARK 500 ILE A 262 -77.38 -93.48 REMARK 500 LYS A 358 45.86 -108.99 REMARK 500 GLU A 460 59.37 -97.23 REMARK 500 LYS B 275 136.79 -178.95 REMARK 500 ARG B 357 151.18 -42.09 REMARK 500 ILE B 456 -52.84 -121.52 REMARK 500 LYS B 458 -76.04 -52.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS A 358 PRO A 359 130.58 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 GW4 A 478 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 478 DBREF 2POB A 206 477 UNP P37231 PPARG_HUMAN 234 505 DBREF 2POB B 206 477 UNP P37231 PPARG_HUMAN 234 505 SEQRES 1 A 272 PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS HIS LEU SEQRES 2 A 272 TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR LYS ALA SEQRES 3 A 272 LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR ASP LYS SEQRES 4 A 272 SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU MET MET SEQRES 5 A 272 GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR PRO LEU SEQRES 6 A 272 GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE PHE GLN SEQRES 7 A 272 GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN GLU ILE SEQRES 8 A 272 THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL ASN LEU SEQRES 9 A 272 ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR GLY VAL SEQRES 10 A 272 HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU MET ASN SEQRES 11 A 272 LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY PHE MET SEQRES 12 A 272 THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO PHE GLY SEQRES 13 A 272 ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL LYS PHE SEQRES 14 A 272 ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA ILE PHE SEQRES 15 A 272 ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO GLY LEU SEQRES 16 A 272 LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP ASN LEU SEQRES 17 A 272 LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN HIS PRO SEQRES 18 A 272 GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN LYS MET SEQRES 19 A 272 THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL GLN LEU SEQRES 20 A 272 LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SER LEU SEQRES 21 A 272 HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU TYR SEQRES 1 B 272 PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS HIS LEU SEQRES 2 B 272 TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR LYS ALA SEQRES 3 B 272 LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR ASP LYS SEQRES 4 B 272 SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU MET MET SEQRES 5 B 272 GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR PRO LEU SEQRES 6 B 272 GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE PHE GLN SEQRES 7 B 272 GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN GLU ILE SEQRES 8 B 272 THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL ASN LEU SEQRES 9 B 272 ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR GLY VAL SEQRES 10 B 272 HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU MET ASN SEQRES 11 B 272 LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY PHE MET SEQRES 12 B 272 THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO PHE GLY SEQRES 13 B 272 ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL LYS PHE SEQRES 14 B 272 ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA ILE PHE SEQRES 15 B 272 ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO GLY LEU SEQRES 16 B 272 LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP ASN LEU SEQRES 17 B 272 LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN HIS PRO SEQRES 18 B 272 GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN LYS MET SEQRES 19 B 272 THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL GLN LEU SEQRES 20 B 272 LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SER LEU SEQRES 21 B 272 HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU TYR HET GW4 A 478 43 HET GOL B 478 6 HETNAM GW4 N-[(2S)-2-[(2-BENZOYLPHENYL)AMINO]-3-{4-[2-(5-METHYL-2- HETNAM 2 GW4 PHENYL-1,3-OXAZOL-4-YL)ETHOXY]PHENYL}PROPYL]ACETAMIDE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GW4 C36 H35 N3 O4 FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *221(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 ILE A 262 1 12 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 LEU A 333 1 24 HELIX 7 7 ARG A 350 SER A 355 1 6 HELIX 8 8 MET A 364 ALA A 376 1 13 HELIX 9 9 ASP A 380 LEU A 393 1 14 HELIX 10 10 ASN A 402 HIS A 425 1 24 HELIX 11 11 GLN A 430 GLU A 460 1 31 HELIX 12 12 HIS A 466 LYS A 474 1 9 HELIX 13 13 GLU B 207 PHE B 226 1 20 HELIX 14 14 THR B 229 THR B 238 1 10 HELIX 15 15 ASP B 251 MET B 257 1 7 HELIX 16 16 GLU B 276 ILE B 303 1 28 HELIX 17 17 GLY B 305 LEU B 309 5 5 HELIX 18 18 ASP B 310 SER B 332 1 23 HELIX 19 19 ARG B 350 LEU B 356 1 7 HELIX 20 20 PRO B 359 PHE B 363 5 5 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 GLU B 460 1 31 HELIX 25 25 HIS B 466 TYR B 473 1 8 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 VAL B 339 O MET B 348 SHEET 4 B 4 MET B 334 ASN B 335 -1 N ASN B 335 O GLY B 338 CISPEP 1 LYS B 358 PRO B 359 0 -10.14 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 ILE A 341 PHE A 360 SITE 3 AC1 13 PHE A 363 MET A 364 HIS A 449 LEU A 469 SITE 4 AC1 13 TYR A 473 SITE 1 AC2 6 ARG B 288 ILE B 341 SER B 342 HOH B 550 SITE 2 AC2 6 HOH B 555 HOH B 561 CRYST1 92.916 62.006 118.172 90.00 101.94 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 0.010762 0.000000 0.002275 0.00000 SCALE2 0.000000 0.016127 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008649 0.00000