PDB Short entry for 4EM9 HEADER TRANSCRIPTION 11-APR-12 4EM9 TITLE HUMAN PPAR GAMMA IN COMPLEX WITH NONANOIC ACIDS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN, UNP RESIDUES 235-505; COMPND 5 SYNONYM: PPAR-GAMMA, NUCLEAR RECEPTOR SUBFAMILY 1 GROUP C MEMBER 3; 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 NUCLEAR RECEPTOR, RETINOIC ACID RECEPTOR, NUCLEUS, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR M.V.LIBERATO,A.S.NASCIMENTO,I.POLIKARPOV REVDAT 2 13-SEP-23 4EM9 1 REMARK SEQADV REVDAT 1 06-MAR-13 4EM9 0 JRNL AUTH M.V.LIBERATO,A.S.NASCIMENTO,S.D.AYERS,J.Z.LIN,A.CVORO, JRNL AUTH 2 R.L.SILVEIRA,L.MARTINEZ,P.C.SOUZA,D.SAIDEMBERG,T.DENG, JRNL AUTH 3 A.A.AMATO,M.TOGASHI,W.A.HSUEH,K.PHILLIPS,M.S.PALMA, JRNL AUTH 4 F.A.NEVES,M.S.SKAF,P.WEBB,I.POLIKARPOV JRNL TITL MEDIUM CHAIN FATTY ACIDS ARE SELECTIVE PEROXISOME JRNL TITL 2 PROLIFERATOR ACTIVATED RECEPTOR (PPAR) GAMMA ACTIVATORS AND JRNL TITL 3 PAN-PPAR PARTIAL AGONISTS JRNL REF PLOS ONE V. 7 36297 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22649490 JRNL DOI 10.1371/JOURNAL.PONE.0036297 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 36859 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 1860 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.8000 - 4.9297 0.96 2808 164 0.2080 0.2464 REMARK 3 2 4.9297 - 3.9149 0.99 2818 173 0.1678 0.1854 REMARK 3 3 3.9149 - 3.4207 1.00 2850 154 0.1744 0.1877 REMARK 3 4 3.4207 - 3.1082 1.00 2824 139 0.2006 0.2200 REMARK 3 5 3.1082 - 2.8855 1.00 2872 155 0.2168 0.2265 REMARK 3 6 2.8855 - 2.7155 0.99 2796 156 0.2146 0.2770 REMARK 3 7 2.7155 - 2.5796 0.99 2784 137 0.2097 0.2393 REMARK 3 8 2.5796 - 2.4673 0.98 2784 156 0.2112 0.2820 REMARK 3 9 2.4673 - 2.3724 0.97 2779 127 0.2124 0.2720 REMARK 3 10 2.3724 - 2.2905 0.97 2761 130 0.2322 0.2624 REMARK 3 11 2.2905 - 2.2189 0.96 2662 157 0.2385 0.2991 REMARK 3 12 2.2189 - 2.1555 0.89 2529 118 0.2649 0.3114 REMARK 3 13 2.1555 - 2.1000 0.61 1732 94 0.2994 0.3522 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 81.82 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35830 REMARK 3 B22 (A**2) : 2.22940 REMARK 3 B33 (A**2) : -1.87110 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.41070 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 4135 REMARK 3 ANGLE : 0.764 5569 REMARK 3 CHIRALITY : 0.044 644 REMARK 3 PLANARITY : 0.003 704 REMARK 3 DIHEDRAL : 15.199 1555 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND ( RESID 207:477 OR RESID 501:503 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.3685 -0.5311 16.9623 REMARK 3 T TENSOR REMARK 3 T11: 0.2739 T22: 0.3107 REMARK 3 T33: 0.2108 T12: 0.1475 REMARK 3 T13: -0.0211 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 1.9049 L22: 1.6142 REMARK 3 L33: 2.1620 L12: 0.4198 REMARK 3 L13: -0.2332 L23: -0.0079 REMARK 3 S TENSOR REMARK 3 S11: -0.1813 S12: -0.1631 S13: -0.0690 REMARK 3 S21: 0.0815 S22: 0.2108 S23: -0.1730 REMARK 3 S31: -0.1340 S32: 0.2534 S33: -0.0368 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN B AND ( RESID 207:474 OR RESID 501:502 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 30.0097 -23.4979 33.7397 REMARK 3 T TENSOR REMARK 3 T11: 0.3202 T22: 0.2397 REMARK 3 T33: 0.2577 T12: 0.1127 REMARK 3 T13: 0.0269 T23: 0.0247 REMARK 3 L TENSOR REMARK 3 L11: 2.3921 L22: 1.0948 REMARK 3 L33: 2.6420 L12: 0.2000 REMARK 3 L13: -0.3545 L23: -0.0319 REMARK 3 S TENSOR REMARK 3 S11: 0.0281 S12: -0.1960 S13: -0.0085 REMARK 3 S21: 0.1231 S22: 0.0171 S23: 0.0823 REMARK 3 S31: -0.1172 S32: 0.1700 S33: -0.0505 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 601:771 ) OR ( CHAIN B AND RESID REMARK 3 601:740 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.2558 -12.7485 23.1014 REMARK 3 T TENSOR REMARK 3 T11: 0.3116 T22: 0.3040 REMARK 3 T33: 0.2939 T12: 0.0458 REMARK 3 T13: 0.0206 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 0.3292 L22: 0.3516 REMARK 3 L33: 0.7289 L12: -0.2189 REMARK 3 L13: 0.4390 L23: -0.3063 REMARK 3 S TENSOR REMARK 3 S11: -0.0525 S12: 0.0012 S13: -0.0024 REMARK 3 S21: 0.0028 S22: 0.0301 S23: 0.0254 REMARK 3 S31: -0.0480 S32: 0.0185 S33: 0.0086 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4EM9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000071795. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-08 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 : LNLS REMARK 200 BEAMLINE : W01B-MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.46 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36859 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 32.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1ZEO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, 0.9M SODIUM CITRATE, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 46.36550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.12750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.36550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 31.12750 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, 3 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 BIOMT1 2 -1.000000 0.000000 0.000000 92.73100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 46.36550 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 -31.12750 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 46.36550 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 -31.12750 REMARK 350 BIOMT3 4 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 203 REMARK 465 SER A 204 REMARK 465 HIS A 205 REMARK 465 MET A 206 REMARK 465 ILE A 262 REMARK 465 LYS A 263 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 GLY B 203 REMARK 465 SER B 204 REMARK 465 HIS B 205 REMARK 465 MET B 206 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 LYS B 261 REMARK 465 ILE B 262 REMARK 465 LYS B 263 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 GLN B 273 REMARK 465 SER B 274 REMARK 465 LYS B 275 REMARK 465 ILE B 456 REMARK 465 LYS B 457 REMARK 465 LYS B 458 REMARK 465 THR B 459 REMARK 465 GLU B 460 REMARK 465 THR B 461 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 240 CG CD CE NZ REMARK 470 MET A 257 CG SD CE REMARK 470 ARG A 280 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 358 CG CD CE NZ REMARK 470 LYS A 457 CG CD CE NZ REMARK 470 GLU A 471 CG CD OE1 OE2 REMARK 470 LYS A 474 CG CD CE NZ REMARK 470 GLN B 283 CG CD OE1 NE2 REMARK 470 GLU B 343 CG CD OE1 OE2 REMARK 470 ARG B 357 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 358 CG CD CE NZ REMARK 470 LYS B 373 CG CD CE NZ REMARK 470 GLN B 451 CG CD OE1 NE2 REMARK 470 LYS B 474 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 CB CYS B 285 O9 TCE B 502 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS B 265 O HOH A 771 3545 2.05 REMARK 500 CD LYS B 265 O HOH A 758 3545 2.06 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 B 238 -90.87 -110.10 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 KNA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KNA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KNA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KNA B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TCE B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VV1 RELATED DB: PDB REMARK 900 HPPARGAMMA LIGAND BINDING DOMAIN IN COMPLEX WITH 4-HDHA REMARK 900 RELATED ID: 1PRG RELATED DB: PDB REMARK 900 LIGAND BINDING DOMAIN OF THE HUMAN PEROXISOME PROLIFERATOR REMARK 900 ACTIVATED RECEPTOR GAMMA REMARK 900 RELATED ID: 3GWX RELATED DB: PDB REMARK 900 MOLECULAR RECOGNITION OF FATTY ACIDS BY PEROXISOME PROLIFERATOR- REMARK 900 ACTIVATED RECEPTORS REMARK 900 RELATED ID: 1ZEO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PPAR-GAMMA LIGAND BINDING DOMAIN REMARK 900 COMPLEXED WITH AN ALPHA-ARYLOXYPHENYLACETIC ACID AGONIST REMARK 900 RELATED ID: 3DZU RELATED DB: PDB REMARK 900 INTACT PPAR GAMMA - RXR ALPHA NUCLEAR RECEPTOR COMPLEX ON DNA BOUND REMARK 900 WITH BVT.13, 9-CIS RETINOIC ACID AND NCOA2 PEPTIDE REMARK 900 RELATED ID: 3DZY RELATED DB: PDB REMARK 900 INTACT PPAR GAMMA - RXR ALPHA NUCLEAR RECEPTOR COMPLEX ON DNA BOUND REMARK 900 WITH ROSIGLITAZONE, 9-CIS RETINOIC ACID AND NCOA2 PEPTIDE REMARK 900 RELATED ID: 4EMA RELATED DB: PDB DBREF 4EM9 A 207 477 UNP P37231 PPARG_HUMAN 235 505 DBREF 4EM9 B 207 477 UNP P37231 PPARG_HUMAN 235 505 SEQADV 4EM9 GLY A 203 UNP P37231 EXPRESSION TAG SEQADV 4EM9 SER A 204 UNP P37231 EXPRESSION TAG SEQADV 4EM9 HIS A 205 UNP P37231 EXPRESSION TAG SEQADV 4EM9 MET A 206 UNP P37231 EXPRESSION TAG SEQADV 4EM9 GLY B 203 UNP P37231 EXPRESSION TAG SEQADV 4EM9 SER B 204 UNP P37231 EXPRESSION TAG SEQADV 4EM9 HIS B 205 UNP P37231 EXPRESSION TAG SEQADV 4EM9 MET B 206 UNP P37231 EXPRESSION TAG SEQRES 1 A 275 GLY SER HIS MET GLU SER ALA ASP LEU ARG ALA LEU ALA SEQRES 2 A 275 LYS HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU SEQRES 3 A 275 THR LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR SEQRES 4 A 275 THR ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER SEQRES 5 A 275 LEU MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE SEQRES 6 A 275 THR PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG SEQRES 7 A 275 ILE PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL SEQRES 8 A 275 GLN GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE SEQRES 9 A 275 VAL ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS SEQRES 10 A 275 TYR GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER SEQRES 11 A 275 LEU MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN SEQRES 12 A 275 GLY PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS SEQRES 13 A 275 PRO PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA SEQRES 14 A 275 VAL LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU SEQRES 15 A 275 ALA ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG SEQRES 16 A 275 PRO GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN SEQRES 17 A 275 ASP ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU SEQRES 18 A 275 ASN HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU SEQRES 19 A 275 GLN LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS SEQRES 20 A 275 VAL GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP SEQRES 21 A 275 MET SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP SEQRES 22 A 275 LEU TYR SEQRES 1 B 275 GLY SER HIS MET GLU SER ALA ASP LEU ARG ALA LEU ALA SEQRES 2 B 275 LYS HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU SEQRES 3 B 275 THR LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR SEQRES 4 B 275 THR ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER SEQRES 5 B 275 LEU MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE SEQRES 6 B 275 THR PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG SEQRES 7 B 275 ILE PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL SEQRES 8 B 275 GLN GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE SEQRES 9 B 275 VAL ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS SEQRES 10 B 275 TYR GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER SEQRES 11 B 275 LEU MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN SEQRES 12 B 275 GLY PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS SEQRES 13 B 275 PRO PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA SEQRES 14 B 275 VAL LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU SEQRES 15 B 275 ALA ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG SEQRES 16 B 275 PRO GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN SEQRES 17 B 275 ASP ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU SEQRES 18 B 275 ASN HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU SEQRES 19 B 275 GLN LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS SEQRES 20 B 275 VAL GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP SEQRES 21 B 275 MET SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP SEQRES 22 B 275 LEU TYR HET KNA A 501 11 HET KNA A 502 11 HET KNA A 503 11 HET GOL A 504 6 HET KNA B 501 11 HET TCE B 502 16 HET GOL B 503 6 HET GOL B 504 6 HETNAM KNA NONANOIC ACID HETNAM GOL GLYCEROL HETNAM TCE 3,3',3''-PHOSPHANETRIYLTRIPROPANOIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TCE 3-[BIS(2-CARBOXYETHYL)PHOSPHANYL]PROPANOIC ACID FORMUL 3 KNA 4(C9 H18 O2) FORMUL 6 GOL 3(C3 H8 O3) FORMUL 8 TCE C9 H15 O6 P FORMUL 11 HOH *311(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 GLU A 259 1 9 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 SER A 342 GLY A 344 5 3 HELIX 8 8 ARG A 350 SER A 355 1 6 HELIX 9 9 PRO A 359 PHE A 363 5 5 HELIX 10 10 MET A 364 ALA A 376 1 13 HELIX 11 11 ASP A 380 LEU A 393 1 14 HELIX 12 12 ASN A 402 HIS A 425 1 24 HELIX 13 13 GLN A 430 GLU A 460 1 31 HELIX 14 14 HIS A 466 LYS A 474 1 9 HELIX 15 15 SER B 208 PHE B 226 1 19 HELIX 16 16 THR B 229 THR B 238 1 10 HELIX 17 17 ASP B 251 GLU B 259 1 9 HELIX 18 18 VAL B 277 SER B 302 1 26 HELIX 19 19 GLY B 305 LEU B 309 5 5 HELIX 20 20 ASP B 310 LEU B 333 1 24 HELIX 21 21 ARG B 350 SER B 355 1 6 HELIX 22 22 PRO B 359 PHE B 363 5 5 HELIX 23 23 MET B 364 ALA B 376 1 13 HELIX 24 24 ASP B 380 LEU B 393 1 14 HELIX 25 25 ASN B 402 HIS B 425 1 24 HELIX 26 26 GLN B 430 LEU B 453 1 24 HELIX 27 27 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 A 358 PRO A 359 0 0.56 CISPEP 2 LYS B 358 PRO B 359 0 -2.28 SITE 1 AC1 8 CYS A 285 ARG A 288 SER A 289 ILE A 326 SITE 2 AC1 8 LEU A 333 MET A 364 KNA A 503 GOL A 504 SITE 1 AC2 7 PHE A 282 CYS A 285 SER A 289 HIS A 323 SITE 2 AC2 7 PHE A 363 HIS A 449 TYR A 473 SITE 1 AC3 6 ARG A 288 LEU A 340 ILE A 341 SER A 342 SITE 2 AC3 6 KNA A 501 HOH A 733 SITE 1 AC4 8 PHE A 226 LEU A 228 ARG A 288 GLU A 295 SITE 2 AC4 8 MET A 329 LEU A 333 KNA A 501 HOH A 637 SITE 1 AC5 9 CYS B 285 ARG B 288 SER B 289 ALA B 292 SITE 2 AC5 9 ILE B 326 TYR B 327 MET B 364 HIS B 449 SITE 3 AC5 9 GOL B 504 SITE 1 AC6 7 GLU B 259 PHE B 264 HIS B 266 CYS B 285 SITE 2 AC6 7 ILE B 341 SER B 342 HOH B 664 SITE 1 AC7 1 ASN B 312 SITE 1 AC8 8 PRO B 227 LEU B 228 ARG B 288 GLU B 295 SITE 2 AC8 8 MET B 329 LEU B 333 KNA B 501 HOH B 613 CRYST1 92.731 62.255 118.649 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 0.010784 0.000000 0.002280 0.00000 SCALE2 0.000000 0.016063 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008615 0.00000