HEADER HYDROLASE 29-APR-16 5G3M TITLE DISCOVERY OF A NOVEL SECRETED PHOSPHOLIPASE A2 (SPLA2) INHIBITOR. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GROUP 10 SECRETORY PHOSPHOLIPASE A2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: MATURE SPLA2-X, UNP RESIDUES 43-165; COMPND 5 SYNONYM: SECRETED PHOSPHOLIPASE A2, GROUP X SECRETORY PHOSPHOLIPASE A COMPND 6 SPLA2-X, PHOSPHATIDYLCHOLINE 2-ACYLHYDROLASE 10; COMPND 7 EC: 3.1.1.4; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: GOLD; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS HYDROLASE, SPLA2, CARDIOVASCULAR DISEASE, INHIBITOR, FRAGMENT EXPDTA X-RAY DIFFRACTION AUTHOR J.SANDMARK,C.BODIN,K.HALLBERG REVDAT 3 04-APR-18 5G3M 1 REMARK REVDAT 2 09-NOV-16 5G3M 1 JRNL REVDAT 1 14-SEP-16 5G3M 0 JRNL AUTH F.GIORDANETTO,D.PETTERSEN,I.STARKE,P.NORDBERG,M.DAHLSTROM, JRNL AUTH 2 L.KNERR,N.SELMI,B.ROSENGREN,L.O.LARSSON,J.SANDMARK, JRNL AUTH 3 M.CASTALDO,N.DEKKER,U.KARLSSON,E.HURT-CAMEJO JRNL TITL DISCOVERY OF AZD2716: A NOVEL SECRETED PHOSPHOLIPASE A2 JRNL TITL 2 (SPLA2) INHIBITOR FOR THE TREATMENT OF CORONARY ARTERY JRNL TITL 3 DISEASE JRNL REF ACS MED.CHEM.LETT. V. 7 884 2016 JRNL REFN ISSN 1948-5875 JRNL PMID 27774123 JRNL DOI 10.1021/ACSMEDCHEMLETT.6B00188 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 19648 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1060 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.89 REMARK 3 REFLECTION IN BIN (WORKING SET) : 548 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 37.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.6310 REMARK 3 BIN FREE R VALUE SET COUNT : 22 REMARK 3 BIN FREE R VALUE : 0.7480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1888 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 151 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : 1.27000 REMARK 3 B33 (A**2) : -1.08000 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): 0.169 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.510 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2124 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1929 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2849 ; 1.270 ; 2.012 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4476 ; 0.793 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 256 ; 4.853 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;37.854 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 317 ;15.398 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;14.862 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 287 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2336 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 446 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 994 ; 0.965 ; 1.833 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 993 ; 0.966 ; 1.830 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1242 ; 1.583 ; 2.739 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1130 ; 1.448 ; 2.162 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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.U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 5G3M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-APR-16. REMARK 100 THE DEPOSITION ID IS D_1290066748. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21292 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.840 REMARK 200 RESOLUTION RANGE LOW (A) : 103.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.66000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40% PEG 400, 0.1 M BIS-TRIS PH 6.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 13.78500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.65800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.56100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.65800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 13.78500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.56100 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 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: 2 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 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 O4 PEG B 1130 O HOH B 2024 2.17 REMARK 500 NZ LYS A 61 O1 PEG A 1133 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2041 O HOH B 2012 1655 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2012 DISTANCE = 6.18 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 200 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 9JH A1134 O15 REMARK 620 2 GLY A 30 O 153.2 REMARK 620 3 GLY A 28 O 76.7 79.4 REMARK 620 4 PEG A1128 O4 102.2 86.6 83.0 REMARK 620 5 ASP A 47 OD2 122.2 82.3 161.1 91.4 REMARK 620 6 ASP A 47 OD1 79.4 127.3 139.2 70.2 52.9 REMARK 620 7 PHE A 26 O 77.9 91.1 91.9 174.8 93.0 114.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 200 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 47 OD1 REMARK 620 2 PHE B 26 O 112.4 REMARK 620 3 GLY B 30 O 127.1 86.7 REMARK 620 4 ASP B 47 OD2 52.4 93.0 79.0 REMARK 620 5 GLY B 28 O 140.4 93.0 82.4 160.0 REMARK 620 6 PEG B1132 O1 76.7 170.5 85.4 90.6 80.8 REMARK 620 7 PEG B1132 O1 78.4 169.1 85.6 93.1 78.4 2.5 REMARK 620 8 9JH B1133 O15 80.3 77.1 152.3 123.6 76.3 108.0 106.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 1124 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 1125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1124 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 1140 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 1126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1126 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1127 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 1141 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1127 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 1129 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1129 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1130 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 1130 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 1131 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1131 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1132 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1133 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 1132 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 9JH A 1134 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 9JH B 1133 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5G3N RELATED DB: PDB REMARK 900 DISCOVERY OF A NOVEL SECRETED PHOSPHOLIPASE A2 (SPLA2) INHIBITOR. DBREF 5G3M A 1 123 UNP O15496 PA2GX_HUMAN 43 165 DBREF 5G3M B 1 123 UNP O15496 PA2GX_HUMAN 43 165 SEQRES 1 A 123 GLY ILE LEU GLU LEU ALA GLY THR VAL GLY CYS VAL GLY SEQRES 2 A 123 PRO ARG THR PRO ILE ALA TYR MET LYS TYR GLY CYS PHE SEQRES 3 A 123 CYS GLY LEU GLY GLY HIS GLY GLN PRO ARG ASP ALA ILE SEQRES 4 A 123 ASP TRP CYS CYS HIS GLY HIS ASP CYS CYS TYR THR ARG SEQRES 5 A 123 ALA GLU GLU ALA GLY CYS SER PRO LYS THR GLU ARG TYR SEQRES 6 A 123 SER TRP GLN CYS VAL ASN GLN SER VAL LEU CYS GLY PRO SEQRES 7 A 123 ALA GLU ASN LYS CYS GLN GLU LEU LEU CYS LYS CYS ASP SEQRES 8 A 123 GLN GLU ILE ALA ASN CYS LEU ALA GLN THR GLU TYR ASN SEQRES 9 A 123 LEU LYS TYR LEU PHE TYR PRO GLN PHE LEU CYS GLU PRO SEQRES 10 A 123 ASP SER PRO LYS CYS ASP SEQRES 1 B 123 GLY ILE LEU GLU LEU ALA GLY THR VAL GLY CYS VAL GLY SEQRES 2 B 123 PRO ARG THR PRO ILE ALA TYR MET LYS TYR GLY CYS PHE SEQRES 3 B 123 CYS GLY LEU GLY GLY HIS GLY GLN PRO ARG ASP ALA ILE SEQRES 4 B 123 ASP TRP CYS CYS HIS GLY HIS ASP CYS CYS TYR THR ARG SEQRES 5 B 123 ALA GLU GLU ALA GLY CYS SER PRO LYS THR GLU ARG TYR SEQRES 6 B 123 SER TRP GLN CYS VAL ASN GLN SER VAL LEU CYS GLY PRO SEQRES 7 B 123 ALA GLU ASN LYS CYS GLN GLU LEU LEU CYS LYS CYS ASP SEQRES 8 B 123 GLN GLU ILE ALA ASN CYS LEU ALA GLN THR GLU TYR ASN SEQRES 9 B 123 LEU LYS TYR LEU PHE TYR PRO GLN PHE LEU CYS GLU PRO SEQRES 10 B 123 ASP SER PRO LYS CYS ASP HET CA A 200 1 HET DMS A1124 4 HET DMS A1125 4 HET DMS A1126 4 HET PEG A1127 7 HET PEG A1128 7 HET PEG A1129 7 HET PEG A1130 7 HET PEG A1131 7 HET PEG A1132 7 HET PEG A1133 7 HET 9JH A1134 16 HET DMS A1140 4 HET DMS A1141 4 HET CA B 200 1 HET DMS B1124 4 HET DMS B1125 4 HET DMS B1126 4 HET DMS B1127 4 HET DMS B1128 4 HET PEG B1129 7 HET PEG B1130 7 HET PEG B1131 7 HET PEG B1132 14 HET 9JH B1133 16 HETNAM CA CALCIUM ION HETNAM DMS DIMETHYL SULFOXIDE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM 9JH 4-BENZYLBENZAMIDE FORMUL 3 CA 2(CA 2+) FORMUL 4 DMS 10(C2 H6 O S) FORMUL 7 PEG 11(C4 H10 O3) FORMUL 14 9JH 2(C14 H13 N O) FORMUL 28 HOH *101(H2 O) HELIX 1 1 GLY A 1 GLY A 13 1 13 HELIX 2 2 THR A 16 MET A 21 5 6 HELIX 3 3 ASP A 37 ALA A 56 1 20 HELIX 4 4 ASN A 81 GLN A 100 1 20 HELIX 5 5 ASN A 104 TYR A 107 5 4 HELIX 6 6 PRO A 111 CYS A 115 5 5 HELIX 7 7 GLY B 1 GLY B 13 1 13 HELIX 8 8 THR B 16 MET B 21 5 6 HELIX 9 9 ASP B 37 ALA B 56 1 20 HELIX 10 10 ASN B 81 ALA B 99 1 19 HELIX 11 11 ASN B 104 TYR B 107 5 4 HELIX 12 12 PRO B 111 CYS B 115 5 5 SHEET 1 AA 2 TRP A 67 CYS A 69 0 SHEET 2 AA 2 VAL A 74 CYS A 76 -1 O LEU A 75 N GLN A 68 SHEET 1 BA 2 TRP B 67 VAL B 70 0 SHEET 2 BA 2 SER B 73 CYS B 76 -1 O SER B 73 N VAL B 70 SSBOND 1 CYS A 11 CYS A 69 1555 1555 2.01 SSBOND 2 CYS A 25 CYS A 115 1555 1555 2.04 SSBOND 3 CYS A 27 CYS A 43 1555 1555 2.01 SSBOND 4 CYS A 42 CYS A 97 1555 1555 2.02 SSBOND 5 CYS A 48 CYS A 122 1555 1555 2.02 SSBOND 6 CYS A 49 CYS A 90 1555 1555 2.02 SSBOND 7 CYS A 58 CYS A 83 1555 1555 2.04 SSBOND 8 CYS A 76 CYS A 88 1555 1555 2.02 SSBOND 9 CYS B 11 CYS B 69 1555 1555 2.02 SSBOND 10 CYS B 25 CYS B 115 1555 1555 2.01 SSBOND 11 CYS B 27 CYS B 43 1555 1555 2.05 SSBOND 12 CYS B 42 CYS B 97 1555 1555 2.04 SSBOND 13 CYS B 48 CYS B 122 1555 1555 2.03 SSBOND 14 CYS B 49 CYS B 90 1555 1555 2.02 SSBOND 15 CYS B 58 CYS B 83 1555 1555 2.01 SSBOND 16 CYS B 76 CYS B 88 1555 1555 2.01 LINK CA CA A 200 O15 9JH A1134 1555 1555 2.50 LINK CA CA A 200 O GLY A 30 1555 1555 2.34 LINK CA CA A 200 O GLY A 28 1555 1555 2.43 LINK CA CA A 200 O4 PEG A1128 1555 1555 2.49 LINK CA CA A 200 OD2 ASP A 47 1555 1555 2.44 LINK CA CA A 200 OD1 ASP A 47 1555 1555 2.41 LINK CA CA A 200 O PHE A 26 1555 1555 2.26 LINK CA CA B 200 OD1 ASP B 47 1555 1555 2.53 LINK CA CA B 200 O PHE B 26 1555 1555 2.28 LINK CA CA B 200 O GLY B 30 1555 1555 2.35 LINK CA CA B 200 OD2 ASP B 47 1555 1555 2.38 LINK CA CA B 200 O GLY B 28 1555 1555 2.44 LINK CA CA B 200 O1 APEG B1132 1555 1555 2.45 LINK CA CA B 200 O1 BPEG B1132 1555 1555 2.39 LINK CA CA B 200 O15 9JH B1133 1555 1555 2.48 CISPEP 1 GLY A 77 PRO A 78 0 -0.88 CISPEP 2 GLY B 13 PRO B 14 0 6.43 CISPEP 3 GLY B 77 PRO B 78 0 -2.83 SITE 1 AC1 6 PHE A 26 GLY A 28 GLY A 30 ASP A 47 SITE 2 AC1 6 PEG A1128 9JH A1134 SITE 1 AC2 6 PHE B 26 GLY B 28 GLY B 30 ASP B 47 SITE 2 AC2 6 PEG B1132 9JH B1133 SITE 1 AC3 1 HIS A 44 SITE 1 AC4 3 CYS A 76 GLN A 92 ALA B 79 SITE 1 AC5 6 PRO A 14 ARG A 15 THR A 16 LEU B 105 SITE 2 AC5 6 LYS B 106 DMS B1126 SITE 1 AC6 4 VAL B 12 PRO B 14 LEU B 29 GLN B 72 SITE 1 AC7 8 LYS A 22 GLY A 24 CYS A 25 CYS A 27 SITE 2 AC7 8 LEU A 29 PEG A1131 HOH A2009 HOH A2015 SITE 1 AC8 7 LYS B 22 GLY B 24 CYS B 27 GLY B 28 SITE 2 AC8 7 LEU B 29 GLY B 30 HOH B2009 SITE 1 AC9 4 THR A 16 LEU B 105 LEU B 108 DMS B1124 SITE 1 BC1 5 PRO A 78 ALA A 79 LEU B 75 CYS B 76 SITE 2 BC1 5 GLN B 92 SITE 1 BC2 5 LEU A 114 LEU B 3 GLU B 4 ARG B 64 SITE 2 BC2 5 TRP B 67 SITE 1 BC3 4 VAL A 74 GLN A 92 ASN A 96 HOH A2038 SITE 1 BC4 5 TRP A 67 GLN A 68 CYS A 69 HOH A2006 SITE 2 BC4 5 PEG B1131 SITE 1 BC5 7 GLY A 28 GLY A 30 ASP A 47 LYS A 61 SITE 2 BC5 7 CA A 200 PEG A1133 9JH A1134 SITE 1 BC6 6 LEU B 29 LYS B 61 ASN B 71 GLN B 72 SITE 2 BC6 6 ASN B 96 HOH B2005 SITE 1 BC7 5 ARG A 64 SER A 66 GLU A 80 GLN B 68 SITE 2 BC7 5 PEG B1131 SITE 1 BC8 1 ALA A 19 SITE 1 BC9 3 TRP B 67 CYS B 69 HOH B2024 SITE 1 CC1 7 TYR A 65 SER A 66 TRP A 67 PEG A1127 SITE 2 CC1 7 PEG A1129 HOH A2005 GLN B 34 SITE 1 CC2 6 LEU A 29 GLY A 31 HIS A 32 GLN A 100 SITE 2 CC2 6 GLN A 112 DMS A1126 SITE 1 CC3 4 ALA A 38 THR A 101 GLU A 102 GLN A 112 SITE 1 CC4 6 LEU A 29 LYS A 61 GLN A 72 SER A 73 SITE 2 CC4 6 ASN A 96 PEG A1128 SITE 1 CC5 6 GLY B 28 GLY B 30 ASP B 47 THR B 51 SITE 2 CC5 6 GLU B 54 CA B 200 SITE 1 CC6 13 LEU A 5 PRO A 17 TYR A 20 MET A 21 SITE 2 CC6 13 PHE A 26 CYS A 27 GLY A 28 CYS A 43 SITE 3 CC6 13 HIS A 46 ASP A 47 ILE A 94 CA A 200 SITE 4 CC6 13 PEG A1128 SITE 1 CC7 10 PRO B 17 TYR B 20 PHE B 26 CYS B 27 SITE 2 CC7 10 GLY B 28 CYS B 43 HIS B 46 ASP B 47 SITE 3 CC7 10 ILE B 94 CA B 200 CRYST1 27.570 85.122 103.316 90.00 90.00 90.00 P 21 21 21 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 0.036271 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011748 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009679 0.00000 MTRIX1 1 -1.000000 0.001815 0.007798 -6.25700 1 MTRIX2 1 0.007978 0.307700 0.951400 -21.41000 1 MTRIX3 1 -0.000673 0.951500 -0.307700 29.10000 1