HEADER HYDROLASE/HYDROLASE INHIBITOR 20-FEB-16 5I9I TITLE CRYSTAL STRUCTURE OF LP_PLA2 IN COMPLEX WITH DARAPLADIB COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLATELET-ACTIVATING FACTOR ACETYLHYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 47-429; COMPND 5 SYNONYM: PAF ACETYLHYDROLASE,1-ALKYL-2-ACETYLGLYCEROPHOSPHOCHOLINE COMPND 6 ESTERASE,2-ACETYL-1-ALKYLGLYCEROPHOSPHOCHOLINE ESTERASE,GROUP-VIIA COMPND 7 PHOSPHOLIPASE A2,GVIIA-PLA2,LDL-ASSOCIATED PHOSPHOLIPASE A2,LDL- COMPND 8 PLA(2),PAF 2-ACYLHYDROLASE; COMPND 9 EC: 3.1.1.47; COMPND 10 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: PLA2G7, PAFAH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2 PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS LP_PLA2 INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Q.F.LIU,Y.C.XU REVDAT 2 08-NOV-23 5I9I 1 COMPND JRNL REMARK HETNAM REVDAT 1 15-JUN-16 5I9I 0 JRNL AUTH Q.F.LIU,X.D.CHEN,W.Y.CHEN,X.J.YUAN,H.X.SU,J.H.SHEN,Y.C.XU JRNL TITL STRUCTURAL AND THERMODYNAMIC CHARACTERIZATION OF JRNL TITL 2 PROTEIN-LIGAND INTERACTIONS FORMED BETWEEN JRNL TITL 3 LIPOPROTEIN-ASSOCIATED PHOSPHOLIPASE A2 AND INHIBITORS JRNL REF J.MED.CHEM. V. 59 5115 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 27078579 JRNL DOI 10.1021/ACS.JMEDCHEM.6B00282 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.06 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.930 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 22260 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.970 REMARK 3 FREE R VALUE TEST SET COUNT : 668 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 44.0703 - 5.6126 0.95 4559 140 0.1925 0.2514 REMARK 3 2 5.6126 - 4.4563 0.94 4438 138 0.1668 0.2395 REMARK 3 3 4.4563 - 3.8934 0.94 4483 140 0.1615 0.1852 REMARK 3 4 3.8934 - 3.5376 0.95 4523 135 0.1682 0.2490 REMARK 3 5 3.5376 - 3.2841 0.96 4564 140 0.1880 0.2851 REMARK 3 6 3.2841 - 3.0905 0.97 4597 144 0.2128 0.2880 REMARK 3 7 3.0905 - 2.9358 0.97 4668 144 0.2268 0.3068 REMARK 3 8 2.9358 - 2.8080 0.97 4654 141 0.2371 0.3835 REMARK 3 9 2.8080 - 2.6999 0.97 4630 138 0.2540 0.3216 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.340 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.72 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.009 5789 REMARK 3 ANGLE : 1.208 7884 REMARK 3 CHIRALITY : 0.046 848 REMARK 3 PLANARITY : 0.006 1021 REMARK 3 DIHEDRAL : 15.192 1980 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5I9I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218473. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22260 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 44.064 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 1.960 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.39200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 3D59 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MOPS PH 6.6, 0.4M LI2SO4, 27% REMARK 280 (W/V) (NH4)2SO4, 1M NA-AC, 1.4% 1,4-BUTANEDIOL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K 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 57.95000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.20500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 57.95000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.20500 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 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 42 REMARK 465 PRO A 43 REMARK 465 LEU A 44 REMARK 465 GLY A 45 REMARK 465 SER A 46 REMARK 465 ALA A 47 REMARK 465 ALA A 48 REMARK 465 ALA A 49 REMARK 465 SER A 50 REMARK 465 PHE A 51 REMARK 465 GLY A 52 REMARK 465 GLN A 53 REMARK 465 THR A 425 REMARK 465 ASN A 426 REMARK 465 GLN A 427 REMARK 465 HIS A 428 REMARK 465 ILE A 429 REMARK 465 GLY B 42 REMARK 465 PRO B 43 REMARK 465 LEU B 44 REMARK 465 GLY B 45 REMARK 465 SER B 46 REMARK 465 ALA B 47 REMARK 465 ALA B 48 REMARK 465 ALA B 49 REMARK 465 SER B 50 REMARK 465 PHE B 51 REMARK 465 GLY B 52 REMARK 465 GLN B 53 REMARK 465 THR B 54 REMARK 465 ASP B 89 REMARK 465 ASN B 90 REMARK 465 ASP B 91 REMARK 465 ARG B 92 REMARK 465 LEU B 93 REMARK 465 ASP B 338 REMARK 465 THR B 424 REMARK 465 THR B 425 REMARK 465 ASN B 426 REMARK 465 GLN B 427 REMARK 465 HIS B 428 REMARK 465 ILE B 429 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 THR A 54 OG1 CG2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 SER A 64 OG REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 GLN A 88 CG CD OE1 NE2 REMARK 470 ASP A 89 CG OD1 OD2 REMARK 470 ASP A 91 CG OD1 OD2 REMARK 470 ARG A 92 NE CZ NH1 NH2 REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 LYS A 109 CG CD CE NZ REMARK 470 THR A 113 OG1 CG2 REMARK 470 HIS A 114 CG ND1 CD2 CE1 NE2 REMARK 470 TRP A 115 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 115 CZ3 CH2 REMARK 470 LEU A 116 CG CD1 CD2 REMARK 470 MET A 117 CG SD CE REMARK 470 ASN A 119 OD1 ND2 REMARK 470 ILE A 120 CG1 CG2 CD1 REMARK 470 LEU A 123 CG CD1 CD2 REMARK 470 LEU A 124 CG CD1 CD2 REMARK 470 SER A 127 OG REMARK 470 THR A 129 OG1 CG2 REMARK 470 LYS A 143 CE NZ REMARK 470 VAL A 174 CG1 CG2 REMARK 470 SER A 194 OG REMARK 470 LYS A 210 CG CD CE NZ REMARK 470 GLN A 211 CG CD OE1 NE2 REMARK 470 GLU A 212 OE1 OE2 REMARK 470 GLU A 220 CG CD OE1 OE2 REMARK 470 LYS A 227 CG CD CE NZ REMARK 470 LYS A 243 CG CD CE NZ REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 ASP A 250 CG OD1 OD2 REMARK 470 LYS A 252 CG CD CE NZ REMARK 470 GLU A 256 CG CD OE1 OE2 REMARK 470 LYS A 259 CD CE NZ REMARK 470 GLU A 285 CG CD OE1 OE2 REMARK 470 ASP A 304 CG OD1 OD2 REMARK 470 LYS A 330 NZ REMARK 470 LYS A 333 CE NZ REMARK 470 ARG A 347 CG CD NE CZ NH1 NH2 REMARK 470 THR A 361 OG1 CG2 REMARK 470 LYS A 363 CG CD CE NZ REMARK 470 ILE A 364 CG1 CG2 CD1 REMARK 470 ILE A 365 CG1 CG2 CD1 REMARK 470 MET A 368 CG SD CE REMARK 470 LYS A 370 CG CD CE NZ REMARK 470 LYS A 394 CG CD CE NZ REMARK 470 LYS A 400 CE NZ REMARK 470 GLU A 414 CG CD OE1 OE2 REMARK 470 ILE A 417 CD1 REMARK 470 ASN A 423 CG OD1 ND2 REMARK 470 THR A 424 OG1 CG2 REMARK 470 LYS B 55 CG CD CE NZ REMARK 470 ARG B 58 CG CD NE CZ NH1 NH2 REMARK 470 SER B 64 OG REMARK 470 SER B 87 OG REMARK 470 GLN B 88 CG CD OE1 NE2 REMARK 470 LYS B 109 CG CD CE NZ REMARK 470 HIS B 114 CG ND1 CD2 CE1 NE2 REMARK 470 TRP B 115 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 115 CZ3 CH2 REMARK 470 LEU B 116 CG CD1 CD2 REMARK 470 LEU B 123 CG CD1 CD2 REMARK 470 LEU B 124 CD1 CD2 REMARK 470 SER B 127 OG REMARK 470 ASN B 133 CG OD1 ND2 REMARK 470 SER B 136 OG REMARK 470 LYS B 143 CG CD CE NZ REMARK 470 ASP B 192 OD1 OD2 REMARK 470 GLN B 193 CG CD OE1 NE2 REMARK 470 SER B 194 OG REMARK 470 ILE B 198 CG1 CG2 CD1 REMARK 470 LYS B 210 CG CD CE NZ REMARK 470 GLN B 211 CG CD OE1 NE2 REMARK 470 GLU B 212 CG CD OE1 OE2 REMARK 470 GLU B 214 CG CD OE1 OE2 REMARK 470 THR B 215 OG1 CG2 REMARK 470 LYS B 246 CG CD CE NZ REMARK 470 ASP B 250 CG OD1 OD2 REMARK 470 LYS B 252 CG CD CE NZ REMARK 470 GLU B 256 CG CD OE1 OE2 REMARK 470 ASP B 304 CG OD1 OD2 REMARK 470 GLU B 305 CG CD OE1 OE2 REMARK 470 SER B 308 OG REMARK 470 ARG B 309 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 329 CG1 CG2 CD1 REMARK 470 LYS B 330 CD CE NZ REMARK 470 LYS B 332 CG CD CE NZ REMARK 470 LYS B 333 CE NZ REMARK 470 SER B 336 OG REMARK 470 LYS B 339 CG CD CE NZ REMARK 470 LYS B 342 CG CD CE NZ REMARK 470 ARG B 347 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 363 CG CD CE NZ REMARK 470 ILE B 364 CG1 CG2 CD1 REMARK 470 ILE B 365 CD1 REMARK 470 MET B 368 CG SD CE REMARK 470 LYS B 370 CG CD CE NZ REMARK 470 ILE B 375 CG1 CG2 CD1 REMARK 470 ASN B 378 CG OD1 ND2 REMARK 470 VAL B 379 CG1 CG2 REMARK 470 LYS B 386 CE NZ REMARK 470 LYS B 394 CD CE NZ REMARK 470 LYS B 400 CG CD CE NZ REMARK 470 ASP B 401 CG OD1 OD2 REMARK 470 GLU B 414 CG CD OE1 OE2 REMARK 470 LEU B 416 CG CD1 CD2 REMARK 470 ILE B 417 CD1 REMARK 470 ASN B 421 CG OD1 ND2 REMARK 470 ILE B 422 CG1 CG2 CD1 REMARK 470 ASN B 423 CG OD1 ND2 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 ASP A 73 -167.81 -71.16 REMARK 500 THR A 113 170.49 -49.26 REMARK 500 HIS A 114 -106.87 -100.36 REMARK 500 PRO A 131 68.82 -68.64 REMARK 500 ALA A 155 -169.64 -111.03 REMARK 500 MET A 255 -17.76 -47.64 REMARK 500 SER A 273 -110.58 62.88 REMARK 500 ASP A 296 64.99 36.18 REMARK 500 ILE A 364 -70.45 -66.82 REMARK 500 HIS A 399 67.66 -105.91 REMARK 500 TRP B 115 0.29 -68.40 REMARK 500 PRO B 131 75.88 -65.88 REMARK 500 LYS B 266 77.15 -114.52 REMARK 500 SER B 273 -108.55 55.61 REMARK 500 ARG B 309 37.58 -141.53 REMARK 500 LYS B 370 32.08 70.71 REMARK 500 HIS B 399 77.70 -108.22 REMARK 500 ASP B 413 140.05 -18.43 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 5HV A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5HV B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5I8P RELATED DB: PDB DBREF 5I9I A 47 429 UNP Q13093 PAFA_HUMAN 47 429 DBREF 5I9I B 47 429 UNP Q13093 PAFA_HUMAN 47 429 SEQADV 5I9I GLY A 42 UNP Q13093 EXPRESSION TAG SEQADV 5I9I PRO A 43 UNP Q13093 EXPRESSION TAG SEQADV 5I9I LEU A 44 UNP Q13093 EXPRESSION TAG SEQADV 5I9I GLY A 45 UNP Q13093 EXPRESSION TAG SEQADV 5I9I SER A 46 UNP Q13093 EXPRESSION TAG SEQADV 5I9I GLY B 42 UNP Q13093 EXPRESSION TAG SEQADV 5I9I PRO B 43 UNP Q13093 EXPRESSION TAG SEQADV 5I9I LEU B 44 UNP Q13093 EXPRESSION TAG SEQADV 5I9I GLY B 45 UNP Q13093 EXPRESSION TAG SEQADV 5I9I SER B 46 UNP Q13093 EXPRESSION TAG SEQRES 1 A 388 GLY PRO LEU GLY SER ALA ALA ALA SER PHE GLY GLN THR SEQRES 2 A 388 LYS ILE PRO ARG GLY ASN GLY PRO TYR SER VAL GLY CYS SEQRES 3 A 388 THR ASP LEU MET PHE ASP HIS THR ASN LYS GLY THR PHE SEQRES 4 A 388 LEU ARG LEU TYR TYR PRO SER GLN ASP ASN ASP ARG LEU SEQRES 5 A 388 ASP THR LEU TRP ILE PRO ASN LYS GLU TYR PHE TRP GLY SEQRES 6 A 388 LEU SER LYS PHE LEU GLY THR HIS TRP LEU MET GLY ASN SEQRES 7 A 388 ILE LEU ARG LEU LEU PHE GLY SER MET THR THR PRO ALA SEQRES 8 A 388 ASN TRP ASN SER PRO LEU ARG PRO GLY GLU LYS TYR PRO SEQRES 9 A 388 LEU VAL VAL PHE SER HIS GLY LEU GLY ALA PHE ARG THR SEQRES 10 A 388 LEU TYR SER ALA ILE GLY ILE ASP LEU ALA SER HIS GLY SEQRES 11 A 388 PHE ILE VAL ALA ALA VAL GLU HIS ARG ASP ARG SER ALA SEQRES 12 A 388 SER ALA THR TYR TYR PHE LYS ASP GLN SER ALA ALA GLU SEQRES 13 A 388 ILE GLY ASP LYS SER TRP LEU TYR LEU ARG THR LEU LYS SEQRES 14 A 388 GLN GLU GLU GLU THR HIS ILE ARG ASN GLU GLN VAL ARG SEQRES 15 A 388 GLN ARG ALA LYS GLU CYS SER GLN ALA LEU SER LEU ILE SEQRES 16 A 388 LEU ASP ILE ASP HIS GLY LYS PRO VAL LYS ASN ALA LEU SEQRES 17 A 388 ASP LEU LYS PHE ASP MET GLU GLN LEU LYS ASP SER ILE SEQRES 18 A 388 ASP ARG GLU LYS ILE ALA VAL ILE GLY HIS SER PHE GLY SEQRES 19 A 388 GLY ALA THR VAL ILE GLN THR LEU SER GLU ASP GLN ARG SEQRES 20 A 388 PHE ARG CYS GLY ILE ALA LEU ASP ALA TRP MET PHE PRO SEQRES 21 A 388 LEU GLY ASP GLU VAL TYR SER ARG ILE PRO GLN PRO LEU SEQRES 22 A 388 PHE PHE ILE ASN SER GLU TYR PHE GLN TYR PRO ALA ASN SEQRES 23 A 388 ILE ILE LYS MET LYS LYS CYS TYR SER PRO ASP LYS GLU SEQRES 24 A 388 ARG LYS MET ILE THR ILE ARG GLY SER VAL HIS GLN ASN SEQRES 25 A 388 PHE ALA ASP PHE THR PHE ALA THR GLY LYS ILE ILE GLY SEQRES 26 A 388 HIS MET LEU LYS LEU LYS GLY ASP ILE ASP SER ASN VAL SEQRES 27 A 388 ALA ILE ASP LEU SER ASN LYS ALA SER LEU ALA PHE LEU SEQRES 28 A 388 GLN LYS HIS LEU GLY LEU HIS LYS ASP PHE ASP GLN TRP SEQRES 29 A 388 ASP CYS LEU ILE GLU GLY ASP ASP GLU ASN LEU ILE PRO SEQRES 30 A 388 GLY THR ASN ILE ASN THR THR ASN GLN HIS ILE SEQRES 1 B 388 GLY PRO LEU GLY SER ALA ALA ALA SER PHE GLY GLN THR SEQRES 2 B 388 LYS ILE PRO ARG GLY ASN GLY PRO TYR SER VAL GLY CYS SEQRES 3 B 388 THR ASP LEU MET PHE ASP HIS THR ASN LYS GLY THR PHE SEQRES 4 B 388 LEU ARG LEU TYR TYR PRO SER GLN ASP ASN ASP ARG LEU SEQRES 5 B 388 ASP THR LEU TRP ILE PRO ASN LYS GLU TYR PHE TRP GLY SEQRES 6 B 388 LEU SER LYS PHE LEU GLY THR HIS TRP LEU MET GLY ASN SEQRES 7 B 388 ILE LEU ARG LEU LEU PHE GLY SER MET THR THR PRO ALA SEQRES 8 B 388 ASN TRP ASN SER PRO LEU ARG PRO GLY GLU LYS TYR PRO SEQRES 9 B 388 LEU VAL VAL PHE SER HIS GLY LEU GLY ALA PHE ARG THR SEQRES 10 B 388 LEU TYR SER ALA ILE GLY ILE ASP LEU ALA SER HIS GLY SEQRES 11 B 388 PHE ILE VAL ALA ALA VAL GLU HIS ARG ASP ARG SER ALA SEQRES 12 B 388 SER ALA THR TYR TYR PHE LYS ASP GLN SER ALA ALA GLU SEQRES 13 B 388 ILE GLY ASP LYS SER TRP LEU TYR LEU ARG THR LEU LYS SEQRES 14 B 388 GLN GLU GLU GLU THR HIS ILE ARG ASN GLU GLN VAL ARG SEQRES 15 B 388 GLN ARG ALA LYS GLU CYS SER GLN ALA LEU SER LEU ILE SEQRES 16 B 388 LEU ASP ILE ASP HIS GLY LYS PRO VAL LYS ASN ALA LEU SEQRES 17 B 388 ASP LEU LYS PHE ASP MET GLU GLN LEU LYS ASP SER ILE SEQRES 18 B 388 ASP ARG GLU LYS ILE ALA VAL ILE GLY HIS SER PHE GLY SEQRES 19 B 388 GLY ALA THR VAL ILE GLN THR LEU SER GLU ASP GLN ARG SEQRES 20 B 388 PHE ARG CYS GLY ILE ALA LEU ASP ALA TRP MET PHE PRO SEQRES 21 B 388 LEU GLY ASP GLU VAL TYR SER ARG ILE PRO GLN PRO LEU SEQRES 22 B 388 PHE PHE ILE ASN SER GLU TYR PHE GLN TYR PRO ALA ASN SEQRES 23 B 388 ILE ILE LYS MET LYS LYS CYS TYR SER PRO ASP LYS GLU SEQRES 24 B 388 ARG LYS MET ILE THR ILE ARG GLY SER VAL HIS GLN ASN SEQRES 25 B 388 PHE ALA ASP PHE THR PHE ALA THR GLY LYS ILE ILE GLY SEQRES 26 B 388 HIS MET LEU LYS LEU LYS GLY ASP ILE ASP SER ASN VAL SEQRES 27 B 388 ALA ILE ASP LEU SER ASN LYS ALA SER LEU ALA PHE LEU SEQRES 28 B 388 GLN LYS HIS LEU GLY LEU HIS LYS ASP PHE ASP GLN TRP SEQRES 29 B 388 ASP CYS LEU ILE GLU GLY ASP ASP GLU ASN LEU ILE PRO SEQRES 30 B 388 GLY THR ASN ILE ASN THR THR ASN GLN HIS ILE HET 5HV A 501 47 HET 5HV B 501 47 HET SO4 B 502 5 HET SO4 B 503 5 HETNAM 5HV N-[2-(DIETHYLAMINO)ETHYL]-2-{2-[(4-FLUOROBENZYL) HETNAM 2 5HV SULFANYL]-4-OXO-4,5,6,7-TETRAHYDRO-1H- HETNAM 3 5HV CYCLOPENTA[D]PYRIMIDIN-1-YL}-N-{[ 4'- HETNAM 4 5HV (TRIFLUOROMETHYL)BIPHENYL-4-YL]METHYL}ACETAMIDE HETNAM SO4 SULFATE ION HETSYN 5HV DARAPLADIB FORMUL 3 5HV 2(C36 H38 F4 N4 O2 S) FORMUL 5 SO4 2(O4 S 2-) FORMUL 7 HOH *6(H2 O) HELIX 1 AA1 ASN A 100 GLY A 112 1 13 HELIX 2 AA2 TRP A 115 GLY A 126 1 12 HELIX 3 AA3 TYR A 160 SER A 169 1 10 HELIX 4 AA4 ASP A 192 GLY A 199 1 8 HELIX 5 AA5 LYS A 210 GLU A 212 5 3 HELIX 6 AA6 GLU A 213 HIS A 241 1 29 HELIX 7 AA7 ASP A 254 LYS A 259 5 6 HELIX 8 AA8 SER A 273 ASP A 286 1 14 HELIX 9 AA9 VAL A 306 ILE A 310 5 5 HELIX 10 AB1 TYR A 324 LYS A 333 1 10 HELIX 11 AB2 VAL A 350 ALA A 360 5 11 HELIX 12 AB3 GLY A 362 LEU A 369 1 8 HELIX 13 AB4 ASP A 376 GLY A 397 1 22 HELIX 14 AB5 ASP A 401 GLN A 404 5 4 HELIX 15 AB6 TRP A 405 GLU A 410 1 6 HELIX 16 AB7 ASN B 100 GLY B 112 1 13 HELIX 17 AB8 HIS B 114 GLY B 126 1 13 HELIX 18 AB9 PHE B 156 LEU B 159 5 4 HELIX 19 AC1 TYR B 160 SER B 169 1 10 HELIX 20 AC2 ASP B 192 ILE B 198 1 7 HELIX 21 AC3 LYS B 210 GLU B 212 5 3 HELIX 22 AC4 GLU B 213 HIS B 241 1 29 HELIX 23 AC5 ASP B 254 LYS B 259 5 6 HELIX 24 AC6 SER B 273 ASP B 286 1 14 HELIX 25 AC7 TYR B 324 LYS B 333 1 10 HELIX 26 AC8 VAL B 350 PHE B 354 5 5 HELIX 27 AC9 ALA B 355 PHE B 359 5 5 HELIX 28 AD1 GLY B 362 LEU B 369 1 8 HELIX 29 AD2 ASP B 376 GLY B 397 1 22 HELIX 30 AD3 LYS B 400 GLN B 404 5 5 HELIX 31 AD4 TRP B 405 GLY B 411 1 7 SHEET 1 AA110 ASN A 133 TRP A 134 0 SHEET 2 AA110 SER A 64 PHE A 72 1 N VAL A 65 O ASN A 133 SHEET 3 AA110 THR A 79 SER A 87 -1 O TYR A 85 N GLY A 66 SHEET 4 AA110 ILE A 173 VAL A 177 -1 O ALA A 176 N ARG A 82 SHEET 5 AA110 TYR A 144 SER A 150 1 N VAL A 147 O ALA A 175 SHEET 6 AA110 ILE A 262 HIS A 272 1 O ALA A 268 N VAL A 148 SHEET 7 AA110 CYS A 291 LEU A 295 1 O LEU A 295 N GLY A 271 SHEET 8 AA110 LEU A 314 SER A 319 1 O PHE A 315 N ALA A 294 SHEET 9 AA110 ARG A 341 ILE A 346 1 O LYS A 342 N PHE A 316 SHEET 10 AA110 LEU A 416 PRO A 418 -1 O ILE A 417 N THR A 345 SHEET 1 AA2 2 THR A 95 LEU A 96 0 SHEET 2 AA2 2 THR A 129 THR A 130 -1 O THR A 130 N THR A 95 SHEET 1 AA3 2 ALA A 186 TYR A 189 0 SHEET 2 AA3 2 SER A 202 TYR A 205 -1 O LEU A 204 N THR A 187 SHEET 1 AA410 ASN B 133 TRP B 134 0 SHEET 2 AA410 SER B 64 PHE B 72 1 N VAL B 65 O ASN B 133 SHEET 3 AA410 THR B 79 SER B 87 -1 O SER B 87 N SER B 64 SHEET 4 AA410 ILE B 173 VAL B 177 -1 O ALA B 176 N ARG B 82 SHEET 5 AA410 TYR B 144 SER B 150 1 N VAL B 147 O ALA B 175 SHEET 6 AA410 ILE B 262 HIS B 272 1 O LYS B 266 N LEU B 146 SHEET 7 AA410 CYS B 291 LEU B 295 1 O LEU B 295 N GLY B 271 SHEET 8 AA410 LEU B 314 SER B 319 1 O PHE B 315 N ALA B 294 SHEET 9 AA410 ARG B 341 ILE B 346 1 O LYS B 342 N PHE B 316 SHEET 10 AA410 LEU B 416 PRO B 418 -1 O ILE B 417 N THR B 345 SHEET 1 AA5 2 THR B 95 LEU B 96 0 SHEET 2 AA5 2 THR B 129 THR B 130 -1 O THR B 130 N THR B 95 SHEET 1 AA6 2 ALA B 186 TYR B 189 0 SHEET 2 AA6 2 SER B 202 TYR B 205 -1 O LEU B 204 N THR B 187 CISPEP 1 PHE A 72 ASP A 73 0 -6.36 CISPEP 2 PHE B 72 ASP B 73 0 -7.57 SITE 1 AC1 17 LEU A 107 PHE A 110 LEU A 111 LEU A 121 SITE 2 AC1 17 GLY A 152 LEU A 153 GLY A 154 LEU A 159 SITE 3 AC1 17 TYR A 160 SER A 273 PHE A 274 TRP A 298 SITE 4 AC1 17 HIS A 351 GLN A 352 PHE A 357 LEU A 369 SITE 5 AC1 17 LEU A 371 SITE 1 AC2 16 LEU B 107 PHE B 110 LEU B 111 LEU B 121 SITE 2 AC2 16 GLY B 152 LEU B 153 GLY B 154 ALA B 155 SITE 3 AC2 16 LEU B 159 SER B 273 PHE B 274 TRP B 298 SITE 4 AC2 16 HIS B 351 GLN B 352 PHE B 357 LEU B 369 SITE 1 AC3 6 GLN A 88 ASP A 89 ASN A 90 ASN B 100 SITE 2 AC3 6 LYS B 101 ARG B 122 SITE 1 AC4 1 ARG B 207 CRYST1 115.900 82.410 96.470 90.00 115.50 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 0.008628 0.000000 0.004115 0.00000 SCALE2 0.000000 0.012134 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011484 0.00000