PDB Short entry for 3KDU HEADER HORMONE RECEPTOR 23-OCT-09 3KDU TITLE CRYSTAL STRUCTURE OF PEROXISOME PROLIFERATOR-ACTIVATEDECEPTOR ALPHA TITLE 2 (PPARALPHA) COMPLEX WITH N-3-((2-(4-CHLOROPHENYL)-5-METHYL-1,3- TITLE 3 OXAZOL-4-YL)METHOXY)BENZYL)-N-((4-METHYLPHENOXY)CARBONYL)GLYCINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR ALPHA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: LIGAND-BINDING DOMAIN: UNP RESIDUES 196-468; COMPND 5 SYNONYM: PPAR-ALPHA, NUCLEAR RECEPTOR SUBFAMILY 1 GROUP C MEMBER 1; 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: PPARA, NR1C1, PPAR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS NUCLEAR HORMONE RECEPTOR, TRANSCRIPTION REGULATION, ACTIVATOR, DNA- KEYWDS 2 BINDING, LIPID-BINDING, RECEPTOR, TRANSCRIPTION, HORMONE RECEPTOR EXPDTA X-RAY DIFFRACTION AUTHOR J.K.MUCKELBAUER REVDAT 2 06-SEP-23 3KDU 1 REMARK SEQADV REVDAT 1 28-APR-10 3KDU 0 JRNL AUTH J.LI,L.J.KENNEDY,Y.SHI,S.TAO,X.Y.YE,S.Y.CHEN,Y.WANG, JRNL AUTH 2 A.S.HERNANDEZ,W.WANG,P.V.DEVASTHALE,S.CHEN,Z.LAI,H.ZHANG, JRNL AUTH 3 S.WU,R.A.SMIRK,S.A.BOLTON,D.E.RYONO,H.ZHANG,N.K.LIM, JRNL AUTH 4 B.C.CHEN,K.T.LOCKE,K.M.O'MALLEY,L.ZHANG,R.A.SRIVASTAVA, JRNL AUTH 5 B.MIAO,D.S.MEYERS,H.MONSHIZADEGAN,D.SEARCH,D.GRIMM,R.ZHANG, JRNL AUTH 6 T.HARRITY,L.K.KUNSELMAN,M.CAP,P.KADIYALA,V.HOSAGRAHARA, JRNL AUTH 7 L.ZHANG,C.XU,Y.X.LI,J.K.MUCKELBAUER,C.CHANG,Y.AN, JRNL AUTH 8 S.R.KRYSTEK,M.A.BLANAR,R.ZAHLER,R.MUKHERJEE,P.T.CHENG, JRNL AUTH 9 J.A.TINO JRNL TITL DISCOVERY OF AN OXYBENZYLGLYCINE BASED PEROXISOME JRNL TITL 2 PROLIFERATOR ACTIVATED RECEPTOR ALPHA SELECTIVE AGONIST JRNL TITL 3 2-((3-((2-(4-CHLOROPHENYL)-5-METHYLOXAZOL-4-YL)METHOXY) JRNL TITL 4 BENZYL)(METHOXYCARBONYL)AMINO)ACETIC ACID (BMS-687453). JRNL REF J.MED.CHEM. V. 53 2854 2010 JRNL REFN ISSN 0022-2623 JRNL PMID 20218621 JRNL DOI 10.1021/JM9016812 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH X.-Y.YE,S.CHEN,H.ZHANG,K.T.LOCKE,K.O'MALLEY,L.ZHANG, REMARK 1 AUTH 2 R.SRIVASTAVA,B.MIAO,D.MEYERS,H.MONSHIZADEGAN,D.SEARCH, REMARK 1 AUTH 3 D.GRIMM,R.ZHANG,J.LIPPY,C.TWAMLEY,J.K.MUCKELBAUER,C.CHANG, REMARK 1 AUTH 4 Y.AN,V.HOSAGRAHARA,L.ZHANG,T.-J.YANG,R.MUKHERJEE, REMARK 1 AUTH 5 P.T.W.CHENG,J.A.TINO REMARK 1 TITL SYNTHESIS AND STRUCTURE-ACTIVITY RELATIONSHIPS OF REMARK 1 TITL 2 2-ARYL-4-OXAZOLYLMETHOXY BENZYLGLYCINES AND REMARK 1 TITL 3 2-ARYL-4-THIAZOLYLMETHOXY BENZYLGLYCINES AS NOVEL, POTENT REMARK 1 TITL 4 PPARALPHA SELECTIVE ACTIVATORS-PPARALPHA AND PPARGAMMA REMARK 1 TITL 5 SELECTIVE MODULATION REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 2.07 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) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 30819 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1551 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) : 2.07 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2150 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 103 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4188 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 74 REMARK 3 SOLVENT ATOMS : 433 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : 0.18000 REMARK 3 B33 (A**2) : -0.36000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.258 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.204 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.134 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.863 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4458 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6045 ; 1.051 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 564 ; 4.449 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 193 ;36.378 ;25.078 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 818 ;13.948 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;14.017 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 691 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3325 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2144 ; 0.189 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3118 ; 0.296 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 377 ; 0.124 ; 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): 83 ; 0.178 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.145 ; 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): 2831 ; 0.644 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4417 ; 1.046 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1831 ; 1.481 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1609 ; 2.196 ; 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 : 1.20 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 3KDU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055867. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.5-7.0 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) : 1.1000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30861 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.070 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : 0.09100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.07 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.32100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.2.0019 REMARK 200 STARTING MODEL: PDB ENTRY 3KDT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, AMMONIUM AND MAGNESIUM REMARK 280 ACETATE, VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 63.38550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.69275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 95.07825 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 192 REMARK 465 SER A 193 REMARK 465 HIS A 194 REMARK 465 MET A 195 REMARK 465 GLU A 196 REMARK 465 ASP A 197 REMARK 465 LYS A 257 REMARK 465 LEU A 258 REMARK 465 VAL A 259 REMARK 465 ALA A 260 REMARK 465 ASN A 261 REMARK 465 GLY A 262 REMARK 465 GLY B 192 REMARK 465 SER B 234 REMARK 465 ALA B 256 REMARK 465 LYS B 257 REMARK 465 LEU B 258 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 208 CG CD CE NZ REMARK 470 LYS A 232 CD CE NZ REMARK 470 ILE A 263 CG1 CG2 CD1 REMARK 470 GLN A 264 CG CD OE1 NE2 REMARK 470 LEU A 302 CG CD1 CD2 REMARK 470 GLN A 435 CD OE1 NE2 REMARK 470 ASP A 453 OD2 REMARK 470 ARG A 465 CZ NH1 NH2 REMARK 470 TYR A 468 CA C O CB CG CD1 CD2 REMARK 470 TYR A 468 CE1 CE2 CZ OH REMARK 470 GLU B 199 CD OE1 OE2 REMARK 470 ARG B 209 CZ NH1 NH2 REMARK 470 LYS B 216 CE NZ REMARK 470 LYS B 232 CD CE NZ REMARK 470 ASN B 236 CG OD1 ND2 REMARK 470 VAL B 259 CG1 CG2 REMARK 470 ASN B 261 CG OD1 ND2 REMARK 470 ILE B 263 CG1 CG2 CD1 REMARK 470 GLN B 264 CD OE1 NE2 REMARK 470 ASP B 387 OD1 REMARK 470 TYR B 468 CA C O CB CG CD1 CD2 REMARK 470 TYR B 468 CE1 CE2 CZ OH 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 ASN A 235 -93.14 -118.82 REMARK 500 MET A 467 10.65 -68.37 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 NKS A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NKS B 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KDT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PEROXISOME PROLIFERATOR-ACTIVATEDECEPTOR ALPHA REMARK 900 (PPARALPHA) COMPLEX WITH N-3-((2-(4-CHLOROPHENYL)-5-METHYL-1,3- REMARK 900 OXAZOL-4-YL)METHOXY)BENZYL)-N-(METHOXYCARBONYL)GLYCINE DBREF 3KDU A 196 468 UNP Q07869 PPARA_HUMAN 196 468 DBREF 3KDU B 196 468 UNP Q07869 PPARA_HUMAN 196 468 SEQADV 3KDU GLY A 192 UNP Q07869 EXPRESSION TAG SEQADV 3KDU SER A 193 UNP Q07869 EXPRESSION TAG SEQADV 3KDU HIS A 194 UNP Q07869 EXPRESSION TAG SEQADV 3KDU MET A 195 UNP Q07869 EXPRESSION TAG SEQADV 3KDU GLY B 192 UNP Q07869 EXPRESSION TAG SEQADV 3KDU SER B 193 UNP Q07869 EXPRESSION TAG SEQADV 3KDU HIS B 194 UNP Q07869 EXPRESSION TAG SEQADV 3KDU MET B 195 UNP Q07869 EXPRESSION TAG SEQRES 1 A 277 GLY SER HIS MET GLU ASP SER GLU THR ALA ASP LEU LYS SEQRES 2 A 277 SER LEU ALA LYS ARG ILE TYR GLU ALA TYR LEU LYS ASN SEQRES 3 A 277 PHE ASN MET ASN LYS VAL LYS ALA ARG VAL ILE LEU SER SEQRES 4 A 277 GLY LYS ALA SER ASN ASN PRO PRO PHE VAL ILE HIS ASP SEQRES 5 A 277 MET GLU THR LEU CYS MET ALA GLU LYS THR LEU VAL ALA SEQRES 6 A 277 LYS LEU VAL ALA ASN GLY ILE GLN ASN LYS GLU ALA GLU SEQRES 7 A 277 VAL ARG ILE PHE HIS CYS CYS GLN CYS THR SER VAL GLU SEQRES 8 A 277 THR VAL THR GLU LEU THR GLU PHE ALA LYS ALA ILE PRO SEQRES 9 A 277 GLY PHE ALA ASN LEU ASP LEU ASN ASP GLN VAL THR LEU SEQRES 10 A 277 LEU LYS TYR GLY VAL TYR GLU ALA ILE PHE ALA MET LEU SEQRES 11 A 277 SER SER VAL MET ASN LYS ASP GLY MET LEU VAL ALA TYR SEQRES 12 A 277 GLY ASN GLY PHE ILE THR ARG GLU PHE LEU LYS SER LEU SEQRES 13 A 277 ARG LYS PRO PHE CYS ASP ILE MET GLU PRO LYS PHE ASP SEQRES 14 A 277 PHE ALA MET LYS PHE ASN ALA LEU GLU LEU ASP ASP SER SEQRES 15 A 277 ASP ILE SER LEU PHE VAL ALA ALA ILE ILE CYS CYS GLY SEQRES 16 A 277 ASP ARG PRO GLY LEU LEU ASN VAL GLY HIS ILE GLU LYS SEQRES 17 A 277 MET GLN GLU GLY ILE VAL HIS VAL LEU ARG LEU HIS LEU SEQRES 18 A 277 GLN SER ASN HIS PRO ASP ASP ILE PHE LEU PHE PRO LYS SEQRES 19 A 277 LEU LEU GLN LYS MET ALA ASP LEU ARG GLN LEU VAL THR SEQRES 20 A 277 GLU HIS ALA GLN LEU VAL GLN ILE ILE LYS LYS THR GLU SEQRES 21 A 277 SER ASP ALA ALA LEU HIS PRO LEU LEU GLN GLU ILE TYR SEQRES 22 A 277 ARG ASP MET TYR SEQRES 1 B 277 GLY SER HIS MET GLU ASP SER GLU THR ALA ASP LEU LYS SEQRES 2 B 277 SER LEU ALA LYS ARG ILE TYR GLU ALA TYR LEU LYS ASN SEQRES 3 B 277 PHE ASN MET ASN LYS VAL LYS ALA ARG VAL ILE LEU SER SEQRES 4 B 277 GLY LYS ALA SER ASN ASN PRO PRO PHE VAL ILE HIS ASP SEQRES 5 B 277 MET GLU THR LEU CYS MET ALA GLU LYS THR LEU VAL ALA SEQRES 6 B 277 LYS LEU VAL ALA ASN GLY ILE GLN ASN LYS GLU ALA GLU SEQRES 7 B 277 VAL ARG ILE PHE HIS CYS CYS GLN CYS THR SER VAL GLU SEQRES 8 B 277 THR VAL THR GLU LEU THR GLU PHE ALA LYS ALA ILE PRO SEQRES 9 B 277 GLY PHE ALA ASN LEU ASP LEU ASN ASP GLN VAL THR LEU SEQRES 10 B 277 LEU LYS TYR GLY VAL TYR GLU ALA ILE PHE ALA MET LEU SEQRES 11 B 277 SER SER VAL MET ASN LYS ASP GLY MET LEU VAL ALA TYR SEQRES 12 B 277 GLY ASN GLY PHE ILE THR ARG GLU PHE LEU LYS SER LEU SEQRES 13 B 277 ARG LYS PRO PHE CYS ASP ILE MET GLU PRO LYS PHE ASP SEQRES 14 B 277 PHE ALA MET LYS PHE ASN ALA LEU GLU LEU ASP ASP SER SEQRES 15 B 277 ASP ILE SER LEU PHE VAL ALA ALA ILE ILE CYS CYS GLY SEQRES 16 B 277 ASP ARG PRO GLY LEU LEU ASN VAL GLY HIS ILE GLU LYS SEQRES 17 B 277 MET GLN GLU GLY ILE VAL HIS VAL LEU ARG LEU HIS LEU SEQRES 18 B 277 GLN SER ASN HIS PRO ASP ASP ILE PHE LEU PHE PRO LYS SEQRES 19 B 277 LEU LEU GLN LYS MET ALA ASP LEU ARG GLN LEU VAL THR SEQRES 20 B 277 GLU HIS ALA GLN LEU VAL GLN ILE ILE LYS LYS THR GLU SEQRES 21 B 277 SER ASP ALA ALA LEU HIS PRO LEU LEU GLN GLU ILE TYR SEQRES 22 B 277 ARG ASP MET TYR HET NKS A 501 37 HET NKS B 501 37 HETNAM NKS N-(3-{[2-(4-CHLOROPHENYL)-5-METHYL-1,3-OXAZOL-4- HETNAM 2 NKS YL]METHOXY}BENZYL)-N-[(4-METHYLPHENOXY) HETNAM 3 NKS CARBONYL]GLYCINE FORMUL 3 NKS 2(C28 H25 CL N2 O6) FORMUL 5 HOH *433(H2 O) HELIX 1 1 THR A 200 PHE A 218 1 19 HELIX 2 2 ASN A 221 SER A 230 1 10 HELIX 3 3 ASP A 243 LEU A 254 1 12 HELIX 4 4 GLU A 267 ALA A 293 1 27 HELIX 5 5 GLY A 296 LEU A 300 5 5 HELIX 6 6 ASP A 301 SER A 322 1 22 HELIX 7 7 ALA A 333 GLY A 335 5 3 HELIX 8 8 ARG A 341 SER A 346 1 6 HELIX 9 9 PRO A 350 ILE A 354 5 5 HELIX 10 10 MET A 355 ALA A 367 1 13 HELIX 11 11 ASP A 371 CYS A 384 1 14 HELIX 12 12 ASN A 393 HIS A 416 1 24 HELIX 13 13 PHE A 421 GLU A 451 1 31 HELIX 14 14 HIS A 457 ARG A 465 1 9 HELIX 15 15 ASP B 197 PHE B 218 1 22 HELIX 16 16 ASN B 221 SER B 230 1 10 HELIX 17 17 ASP B 243 LEU B 254 1 12 HELIX 18 18 GLU B 267 ALA B 293 1 27 HELIX 19 19 GLY B 296 LEU B 300 5 5 HELIX 20 20 ASP B 301 SER B 322 1 22 HELIX 21 21 ALA B 333 GLY B 335 5 3 HELIX 22 22 ARG B 341 SER B 346 1 6 HELIX 23 23 PRO B 350 ILE B 354 5 5 HELIX 24 24 MET B 355 ALA B 367 1 13 HELIX 25 25 ASP B 371 CYS B 384 1 14 HELIX 26 26 ASN B 393 HIS B 416 1 24 HELIX 27 27 PHE B 421 GLU B 451 1 31 HELIX 28 28 HIS B 457 ARG B 465 1 9 SHEET 1 A 4 PHE A 239 ILE A 241 0 SHEET 2 A 4 GLY A 337 THR A 340 1 O PHE A 338 N ILE A 241 SHEET 3 A 4 GLY A 329 VAL A 332 -1 N MET A 330 O ILE A 339 SHEET 4 A 4 MET A 325 ASN A 326 -1 N ASN A 326 O GLY A 329 SHEET 1 B 4 PHE B 239 ILE B 241 0 SHEET 2 B 4 GLY B 337 THR B 340 1 O PHE B 338 N ILE B 241 SHEET 3 B 4 GLY B 329 VAL B 332 -1 N VAL B 332 O GLY B 337 SHEET 4 B 4 MET B 325 ASN B 326 -1 N ASN B 326 O GLY B 329 CISPEP 1 LYS A 349 PRO A 350 0 -0.83 CISPEP 2 LYS B 349 PRO B 350 0 3.87 SITE 1 AC1 14 HOH A 188 LEU A 247 ILE A 272 PHE A 273 SITE 2 AC1 14 CYS A 276 SER A 280 TYR A 314 MET A 330 SITE 3 AC1 14 VAL A 332 ILE A 354 MET A 355 HIS A 440 SITE 4 AC1 14 LEU A 460 TYR A 464 SITE 1 AC2 12 VAL B 255 PHE B 273 CYS B 276 SER B 280 SITE 2 AC2 12 TYR B 314 MET B 330 VAL B 332 ILE B 354 SITE 3 AC2 12 MET B 355 HIS B 440 LEU B 460 TYR B 464 CRYST1 63.930 63.930 126.771 90.00 90.00 90.00 P 41 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 0.015642 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015642 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007888 0.00000