10 20 30 40 50 60 70 80 2Q6R - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER LIGAND BINDING PROTEIN 01-JUN-07 2Q6R
TITLE CRYSTAL STRUCTURE OF PPAR GAMMA COMPLEXED WITH PARTIAL TITLE 2 AGONIST SF147
CAVEAT 2Q6R CHIRALITY ERROR AT HIS B 466
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 2 24-FEB-09 2Q6R 1 VERSN REVDAT 1 23-OCT-07 2Q6R 0
JRNL AUTH J.B.BRUNING,M.J.CHALMERS,S.PRASAD,S.A.BUSBY, JRNL AUTH 2 T.M.KAMENECKA,Y.HE,K.W.NETTLES,P.R.GRIFFIN JRNL TITL PARTIAL AGONISTS ACTIVATE PPARGAMMA USING A HELIX JRNL TITL 2 12 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 1
REMARK 2 REMARK 2 RESOLUTION. 2.41 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.9 REMARK 3 NUMBER OF REFLECTIONS : 22642 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) : 0.270 REMARK 3 R VALUE (WORKING SET) : 0.269 REMARK 3 FREE R VALUE : 0.284 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1146 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) : 2.41 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 885 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 53.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE SET COUNT : 39 REMARK 3 BIN FREE R VALUE : 0.3280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3887 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 88.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.69000 REMARK 3 B22 (A**2) : 6.03000 REMARK 3 B33 (A**2) : -6.69000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.312 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.288 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.435 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4010 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5408 ; 1.616 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ;12.592 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;40.929 ;25.460 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 742 ;18.730 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;16.954 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 624 ; 0.228 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2935 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2011 ; 0.234 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2785 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 148 ; 0.322 ; 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): 71 ; 0.189 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.142 ; 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): 2453 ; 5.593 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3945 ; 9.548 ; 4.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1557 ; 6.915 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1463 ;10.973 ; 7.500 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 207 A 260 3 REMARK 3 1 B 207 B 260 3 REMARK 3 2 A 275 A 476 4 REMARK 3 2 B 275 B 476 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 212 ; 0.230 ; 0.050 REMARK 3 MEDIUM POSITIONAL 1 A (A): 1382 ; 1.320 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 202 ; 0.990 ; 5.000 REMARK 3 TIGHT THERMAL 1 A (A**2): 212 ;15.480 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1382 ;28.660 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 202 ;17.850 ;10.000 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 476 REMARK 3 ORIGIN FOR THE GROUP (A): -12.0271 10.3010 -16.7198 REMARK 3 T TENSOR REMARK 3 T11: 0.1793 T22: 0.1452 REMARK 3 T33: 0.2522 T12: 0.0009 REMARK 3 T13: -0.0126 T23: -0.0187 REMARK 3 L TENSOR REMARK 3 L11: 0.1722 L22: 1.0811 REMARK 3 L33: 1.7994 L12: 0.4159 REMARK 3 L13: -0.2829 L23: -0.3627 REMARK 3 S TENSOR REMARK 3 S11: 0.0303 S12: 0.1176 S13: 0.0684 REMARK 3 S21: 0.0653 S22: 0.0019 S23: 0.1789 REMARK 3 S31: 0.0430 S32: -0.5450 S33: -0.0322 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 207 B 477 REMARK 3 ORIGIN FOR THE GROUP (A): -29.9718 -10.0168 -34.6744 REMARK 3 T TENSOR REMARK 3 T11: 0.1701 T22: -0.0051 REMARK 3 T33: 0.2265 T12: 0.0069 REMARK 3 T13: -0.0329 T23: 0.0066 REMARK 3 L TENSOR REMARK 3 L11: 0.9528 L22: 0.4592 REMARK 3 L33: 0.6374 L12: 0.1366 REMARK 3 L13: -0.1980 L23: 0.0280 REMARK 3 S TENSOR REMARK 3 S11: 0.0878 S12: 0.0643 S13: 0.0756 REMARK 3 S21: -0.0428 S22: -0.0426 S23: 0.0510 REMARK 3 S31: -0.0839 S32: -0.0535 S33: -0.0451 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 REMARK 3 RIDING POSITIONS
REMARK 4 REMARK 4 2Q6R COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-07. REMARK 100 THE RCSB ID CODE IS RCSB043219.
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 ROSENBAUM-ROCK DOUBLE- REMARK 200 CRYSTAL 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 REMARK 200 DATA SCALING SOFTWARE : HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22911 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 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 (%) : 91.3 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.06800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.19600 REMARK 200 R SYM FOR SHELL (I) : 0.19600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.800 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 (%): 52.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4M SODIUM CITRATE, 0.125M TRIS REMARK 280 8.0, 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 45.40000 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 45.40000 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 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 ARG A 357 REMARK 465 LYS A 358 REMARK 465 PRO A 359 REMARK 465 PHE A 360 REMARK 465 VAL A 450 REMARK 465 GLN A 451 REMARK 465 LEU A 452 REMARK 465 LEU A 453 REMARK 465 GLN A 454 REMARK 465 VAL A 455 REMARK 465 ILE A 456 REMARK 465 LYS A 457 REMARK 465 LYS A 458 REMARK 465 THR A 459 REMARK 465 GLU A 460 REMARK 465 THR A 461 REMARK 465 ASP A 462 REMARK 465 MET A 463 REMARK 465 SER A 464 REMARK 465 LEU A 465 REMARK 465 HIS A 466 REMARK 465 TYR A 477 REMARK 465 SER B 204 REMARK 465 ASN B 205 REMARK 465 PRO B 206 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 GLN B 273 REMARK 465 SER B 274 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 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 LYS A 275 CG CD CE NZ REMARK 470 LYS A 319 CG CD CE NZ REMARK 470 TYR A 320 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 373 CG CD CE NZ REMARK 470 LYS A 422 CG CD CE NZ REMARK 470 HIS A 449 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 457 CG CD CE NZ REMARK 470 LYS B 458 CG CD CE NZ REMARK 470 SER B 464 OG REMARK 470 LEU B 465 CG CD1 CD2 REMARK 470 HIS B 466 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 476 CG CD1 CD2 REMARK 470 TYR B 477 CG CD1 CD2 CE1 CE2 CZ OH
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 TYR B 477 O HOH B 14 0.82 REMARK 500 C TYR B 477 O HOH B 14 1.97 REMARK 500 O LYS B 301 O HOH B 65 2.13 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 B 358 CE LYS B 358 NZ 0.173 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 475 CB - CA - C ANGL. DEV. = -36.8 DEGREES REMARK 500 ASP A 475 N - CA - C ANGL. DEV. = 58.7 DEGREES REMARK 500 LEU A 476 C - N - CA ANGL. DEV. = 31.6 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 242 -26.34 -35.17 REMARK 500 GLU A 259 49.61 -86.16 REMARK 500 GLU A 276 -161.82 -68.81 REMARK 500 ASP A 310 127.42 -25.74 REMARK 500 ASN A 335 -166.51 -129.74 REMARK 500 SER A 342 78.53 45.90 REMARK 500 GLU A 343 50.90 28.97 REMARK 500 LEU A 393 53.60 -99.73 REMARK 500 THR A 447 33.47 -78.83 REMARK 500 LYS A 474 81.95 -63.14 REMARK 500 LYS B 240 45.62 -106.03 REMARK 500 THR B 241 -153.97 163.24 REMARK 500 ASP B 243 -131.90 -129.70 REMARK 500 ASP B 260 -70.78 -114.67 REMARK 500 PHE B 264 96.70 50.92 REMARK 500 ARG B 357 -165.59 -39.05 REMARK 500 LYS B 358 -104.65 -19.89 REMARK 500 ASP B 362 -167.01 -110.72 REMARK 500 PHE B 363 -10.49 93.49 REMARK 500 SER B 429 -73.07 -55.88 REMARK 500 GLN B 430 50.08 -99.78 REMARK 500 ILE B 456 47.93 -106.20 REMARK 500 HIS B 466 -122.92 -88.61 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 -149.00 REMARK 500 ASP A 475 LEU A 476 124.17 REMARK 500 LYS B 240 THR B 241 137.96 REMARK 500 THR B 242 ASP B 243 87.71 REMARK 500 ASP B 243 LYS B 244 -143.77 REMARK 500 LEU B 465 HIS B 466 132.46 REMARK 500 PRO B 467 LEU B 468 122.94 REMARK 500 ASP B 475 LEU B 476 121.68 REMARK 500 LEU B 476 TYR B 477 -127.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 HIS B 466 123.0 ALPHA-CARBON 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 SF2 A 5001 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF2 B 7001
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q59 RELATED DB: PDB REMARK 900 RELATED ID: 2Q5P RELATED DB: PDB REMARK 900 RELATED ID: 2Q5S RELATED DB: PDB REMARK 900 RELATED ID: 2Q61 RELATED DB: PDB REMARK 900 RELATED ID: 2Q6S RELATED DB: PDB
DBREF 2Q6R A 205 477 UNP P37231 PPARG_HUMAN 233 505 DBREF 2Q6R B 205 477 UNP P37231 PPARG_HUMAN 233 505
SEQADV 2Q6R SER A 204 UNP P37231 EXPRESSION TAG SEQADV 2Q6R 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 SF2 A5001 29 HET SF2 B7001 29
HETNAM SF2 5-CHLORO-1-(3-METHOXYBENZYL)-3-(PHENYLTHIO)-1H-INDOLE- HETNAM 2 SF2 2-CARBOXYLIC ACID
HETSYN SF2 SF147
FORMUL 3 SF2 2(C23 H18 CL N O3 S) FORMUL 5 HOH *124(H2 O)
HELIX 1 1 ALA A 209 PHE A 226 1 18 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 VAL A 277 ILE A 303 1 27 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 332 MET A 334 5 3 HELIX 8 8 ARG A 350 LYS A 354 1 5 HELIX 9 9 MET A 364 ASN A 375 1 12 HELIX 10 10 ALA A 376 GLU A 378 5 3 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 VAL A 446 1 17 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 ILE B 262 1 12 HELIX 17 17 GLU B 276 ILE B 303 1 28 HELIX 18 18 GLY B 305 LEU B 309 5 5 HELIX 19 19 ASP B 310 ALA B 331 1 22 HELIX 20 20 SER B 332 MET B 334 5 3 HELIX 21 21 ARG B 350 SER B 355 1 6 HELIX 22 22 MET B 364 ALA B 376 1 13 HELIX 23 23 ASP B 380 LEU B 393 1 14 HELIX 24 24 ASN B 402 HIS B 425 1 24 HELIX 25 25 GLN B 430 LEU B 453 1 24
SHEET 1 A 3 PHE A 247 ILE A 249 0 SHEET 2 A 3 GLY A 346 THR A 349 1 O PHE A 347 N ILE A 249 SHEET 3 A 3 GLY A 338 ILE A 341 -1 N VAL A 339 O MET A 348 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 VAL B 339 O MET B 348
CISPEP 1 HIS B 466 PRO B 467 0 16.46
SITE 1 AC1 14 HOH A 21 HOH A 113 GLY A 284 CYS A 285 SITE 2 AC1 14 ARG A 288 LEU A 330 LEU A 333 LEU A 340 SITE 3 AC1 14 ILE A 341 SER A 342 MET A 348 LEU A 353 SITE 4 AC1 14 PHE A 363 MET A 364 SITE 1 AC2 12 HOH B 11 ILE B 249 PHE B 264 GLY B 284 SITE 2 AC2 12 CYS B 285 ARG B 288 SER B 289 ILE B 326 SITE 3 AC2 12 ILE B 341 SER B 342 MET B 348 MET B 364
CRYST1 90.800 62.255 118.071 90.00 101.12 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 0.011013 0.000000 0.002165 0.00000
SCALE2 0.000000 0.016063 0.000000 0.00000
SCALE3 0.000000 0.000000 0.008632 0.00000