HEADER LIGAND BINDING PROTEIN 01-JUN-07 2Q5P TITLE CRYSTAL STRUCTURE OF PPARGAMMA BOUND TO PARTIAL AGONIST MRL24 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; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG19 KEYWDS PROTEIN-LIGAND COMPLEX, LIGAND BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.B.BRUNING,K.W.NETTLES REVDAT 4 30-AUG-23 2Q5P 1 REMARK SEQADV REVDAT 3 18-OCT-17 2Q5P 1 REMARK REVDAT 2 24-FEB-09 2Q5P 1 VERSN REVDAT 1 23-OCT-07 2Q5P 0 JRNL AUTH J.B.BRUNING,M.J.CHALMERS,S.PRASAD,S.A.BUSBY,T.M.KAMENECKA, JRNL AUTH 2 Y.HE,K.W.NETTLES,P.R.GRIFFIN JRNL TITL PARTIAL AGONISTS ACTIVATE PPARGAMMA USING A HELIX 12 JRNL TITL 2 INDEPENDENT MECHANISM JRNL REF STRUCTURE V. 15 1258 2007 JRNL REFN ISSN 0969-2126 JRNL PMID 17937915 JRNL DOI 10.1016/J.STR.2007.07.014 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2 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) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 25937 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1273 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) : 1139 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3991 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.39000 REMARK 3 B33 (A**2) : -0.33000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.365 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.246 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.293 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4199 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5678 ; 1.303 ; 2.010 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 512 ; 5.530 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 181 ;35.923 ;25.193 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 794 ;17.144 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;20.108 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 651 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3077 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2169 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2962 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 181 ; 0.154 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL 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): 98 ; 0.223 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.158 ; 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): 2611 ; 0.576 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4091 ; 0.918 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1809 ; 1.437 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1580 ; 2.235 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2Q5P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9764 REMARK 200 MONOCHROMATOR : SI (220) CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000, DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26218 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : 0.04900 REMARK 200 FOR THE DATA SET : 25.4000 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 (%) : 63.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.11900 REMARK 200 R SYM FOR SHELL (I) : 0.11900 REMARK 200 FOR SHELL : 10.40 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1KNU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4M SODIUM CITRATE, 0.125M TRIS 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, PH 8.0 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 45.67750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.72600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.67750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.72600 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 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 SER A 204 REMARK 465 ASN A 205 REMARK 465 PRO A 206 REMARK 465 LYS A 261 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 SER A 274 REMARK 465 TYR A 477 REMARK 465 SER B 204 REMARK 465 ASN B 205 REMARK 465 PRO B 206 REMARK 465 THR B 241 REMARK 465 THR B 242 REMARK 465 ASP B 243 REMARK 465 LYS B 244 REMARK 465 ASP B 260 REMARK 465 LYS B 261 REMARK 465 ILE B 262 REMARK 465 LYS B 263 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 GLU B 276 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 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 ASP A 475 CG OD1 OD2 REMARK 470 LEU A 476 CG CD1 CD2 REMARK 470 GLU B 259 CG CD OE1 OE2 REMARK 470 VAL B 277 CG1 CG2 REMARK 470 ILE B 456 CG1 CG2 CD1 REMARK 470 LEU B 465 CG CD1 CD2 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 OE2 GLU A 276 NH1 ARG A 357 2.18 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 LYS A 240 N LYS A 240 CA 0.410 REMARK 500 ASP A 251 CG ASP A 251 OD2 0.139 REMARK 500 GLU B 207 CD GLU B 207 OE1 0.094 REMARK 500 GLU B 207 CD GLU B 207 OE2 0.139 REMARK 500 LYS B 240 C LYS B 240 O 0.208 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 LYS A 240 N - CA - CB ANGL. DEV. = 31.0 DEGREES REMARK 500 LYS A 240 N - CA - C ANGL. DEV. = -22.6 DEGREES REMARK 500 ARG A 357 NE - CZ - NH1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 357 NE - CZ - NH2 ANGL. DEV. = -3.1 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 LYS A 240 -95.04 -137.91 REMARK 500 LYS A 240 -74.67 -143.54 REMARK 500 LYS A 240 -78.97 -141.32 REMARK 500 TYR A 250 -13.76 -141.03 REMARK 500 ASN A 253 -71.45 -63.90 REMARK 500 ARG A 357 153.06 -45.05 REMARK 500 ASN A 402 79.38 -118.01 REMARK 500 ASP A 475 61.00 75.05 REMARK 500 TYR B 473 41.71 -106.53 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 240 THR A 241 -132.13 REMARK 500 LYS A 240 THR A 241 -149.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 357 0.07 SIDE CHAIN 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 241 A 5001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 241 B 7001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q59 RELATED DB: PDB REMARK 900 RELATED ID: 2Q5S RELATED DB: PDB REMARK 900 RELATED ID: 2Q61 RELATED DB: PDB REMARK 900 RELATED ID: 2Q6R RELATED DB: PDB REMARK 900 RELATED ID: 2Q6S RELATED DB: PDB DBREF 2Q5P A 205 477 UNP P37231 PPARG_HUMAN 233 505 DBREF 2Q5P B 205 477 UNP P37231 PPARG_HUMAN 233 505 SEQADV 2Q5P SER A 204 UNP P37231 EXPRESSION TAG SEQADV 2Q5P SER B 204 UNP P37231 EXPRESSION TAG SEQRES 1 A 274 SER ASN PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS SEQRES 2 A 274 HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR SEQRES 3 A 274 LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR SEQRES 4 A 274 ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU SEQRES 5 A 274 MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR SEQRES 6 A 274 PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE SEQRES 7 A 274 PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN SEQRES 8 A 274 GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL SEQRES 9 A 274 ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR SEQRES 10 A 274 GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU SEQRES 11 A 274 MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY SEQRES 12 A 274 PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO SEQRES 13 A 274 PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL SEQRES 14 A 274 LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA SEQRES 15 A 274 ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO SEQRES 16 A 274 GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP SEQRES 17 A 274 ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN SEQRES 18 A 274 HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN SEQRES 19 A 274 LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL SEQRES 20 A 274 GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SEQRES 21 A 274 SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU SEQRES 22 A 274 TYR SEQRES 1 B 274 SER ASN PRO GLU SER ALA ASP LEU ARG ALA LEU ALA LYS SEQRES 2 B 274 HIS LEU TYR ASP SER TYR ILE LYS SER PHE PRO LEU THR SEQRES 3 B 274 LYS ALA LYS ALA ARG ALA ILE LEU THR GLY LYS THR THR SEQRES 4 B 274 ASP LYS SER PRO PHE VAL ILE TYR ASP MET ASN SER LEU SEQRES 5 B 274 MET MET GLY GLU ASP LYS ILE LYS PHE LYS HIS ILE THR SEQRES 6 B 274 PRO LEU GLN GLU GLN SER LYS GLU VAL ALA ILE ARG ILE SEQRES 7 B 274 PHE GLN GLY CYS GLN PHE ARG SER VAL GLU ALA VAL GLN SEQRES 8 B 274 GLU ILE THR GLU TYR ALA LYS SER ILE PRO GLY PHE VAL SEQRES 9 B 274 ASN LEU ASP LEU ASN ASP GLN VAL THR LEU LEU LYS TYR SEQRES 10 B 274 GLY VAL HIS GLU ILE ILE TYR THR MET LEU ALA SER LEU SEQRES 11 B 274 MET ASN LYS ASP GLY VAL LEU ILE SER GLU GLY GLN GLY SEQRES 12 B 274 PHE MET THR ARG GLU PHE LEU LYS SER LEU ARG LYS PRO SEQRES 13 B 274 PHE GLY ASP PHE MET GLU PRO LYS PHE GLU PHE ALA VAL SEQRES 14 B 274 LYS PHE ASN ALA LEU GLU LEU ASP ASP SER ASP LEU ALA SEQRES 15 B 274 ILE PHE ILE ALA VAL ILE ILE LEU SER GLY ASP ARG PRO SEQRES 16 B 274 GLY LEU LEU ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP SEQRES 17 B 274 ASN LEU LEU GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN SEQRES 18 B 274 HIS PRO GLU SER SER GLN LEU PHE ALA LYS LEU LEU GLN SEQRES 19 B 274 LYS MET THR ASP LEU ARG GLN ILE VAL THR GLU HIS VAL SEQRES 20 B 274 GLN LEU LEU GLN VAL ILE LYS LYS THR GLU THR ASP MET SEQRES 21 B 274 SER LEU HIS PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU SEQRES 22 B 274 TYR HET 241 A5001 38 HET 241 B7001 38 HETNAM 241 (2S)-2-(3-{[1-(4-METHOXYBENZOYL)-2-METHYL-5- HETNAM 2 241 (TRIFLUOROMETHOXY)-1H-INDOL-3-YL]METHYL}PHENOXY) HETNAM 3 241 PROPANOIC ACID HETSYN 241 MRL24 FORMUL 3 241 2(C28 H24 F3 N O6) FORMUL 5 HOH *100(H2 O) HELIX 1 1 GLU A 207 PHE A 226 1 20 HELIX 2 2 THR A 229 GLY A 239 1 11 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 ARG A 350 LEU A 356 1 7 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 LYS A 474 1 9 HELIX 14 14 GLU B 207 PHE B 226 1 20 HELIX 15 15 THR B 229 THR B 238 1 10 HELIX 16 16 ASP B 251 GLY B 258 1 8 HELIX 17 17 VAL B 277 ILE B 303 1 27 HELIX 18 18 GLY B 305 LEU B 309 5 5 HELIX 19 19 ASP B 310 SER B 332 1 23 HELIX 20 20 SER B 342 GLY B 344 5 3 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 3 PHE B 247 ILE B 249 0 SHEET 2 B 3 GLY B 346 THR B 349 1 O PHE B 347 N ILE B 249 SHEET 3 B 3 GLY B 338 ILE B 341 -1 N ILE B 341 O GLY B 346 CISPEP 1 GLY A 239 LYS A 240 0 5.20 CISPEP 2 GLY A 239 LYS A 240 0 -10.42 CISPEP 3 GLY A 239 LYS A 240 0 -7.52 CISPEP 4 LYS B 358 PRO B 359 0 -3.17 CISPEP 5 VAL B 455 ILE B 456 0 4.29 SITE 1 AC1 16 PHE A 226 GLY A 284 CYS A 285 ARG A 288 SITE 2 AC1 16 SER A 289 ALA A 292 ILE A 296 ILE A 326 SITE 3 AC1 16 TYR A 327 MET A 329 LEU A 330 LEU A 333 SITE 4 AC1 16 LEU A 340 ILE A 341 SER A 342 HIS A 449 SITE 1 AC2 19 HOH B 99 PHE B 226 PHE B 264 GLY B 284 SITE 2 AC2 19 CYS B 285 ARG B 288 SER B 289 ALA B 292 SITE 3 AC2 19 ILE B 326 TYR B 327 MET B 329 LEU B 330 SITE 4 AC2 19 LEU B 333 LEU B 340 ILE B 341 SER B 342 SITE 5 AC2 19 PHE B 363 MET B 364 HIS B 449 CRYST1 91.355 61.452 117.947 90.00 102.42 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 0.010946 0.000000 0.002411 0.00000 SCALE2 0.000000 0.016273 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008682 0.00000