HEADER LIPASE 28-AUG-03 1UMV TITLE CRYSTAL STRUCTURE OF AN ACIDIC, NON-MYOTOXIC PHOSPHOLIPASE A2 FROM THE TITLE 2 VENOM OF BOTHROPS JARARACUSSU COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTENSIVE PHOSPHOLIPASE A2; COMPND 3 CHAIN: X; COMPND 4 SYNONYM: PHOSPHOLIPASE A2, PLA2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOTHROPS JARARACUSSU; SOURCE 3 ORGANISM_COMMON: JARARACUSSU; SOURCE 4 ORGANISM_TAXID: 8726; SOURCE 5 SECRETION: VENOM KEYWDS ACIDIC, NON-MYOTOXIC, PLA2, BOTHROPS JARARACUSSU, LIPASE EXPDTA X-RAY DIFFRACTION AUTHOR M.T.MURAKAMI,L.WATANABE,A.C.O.CINTRA,R.K.ARNI REVDAT 5 20-NOV-24 1UMV 1 REMARK REVDAT 4 13-DEC-23 1UMV 1 LINK REVDAT 3 24-FEB-09 1UMV 1 VERSN REVDAT 2 01-MAY-07 1UMV 1 JRNL REVDAT 1 18-SEP-03 1UMV 0 JRNL AUTH A.J.MAGRO,M.T.MURAKAMI,S.MARCUSSI,A.M.SOARES,R.K.ARNI, JRNL AUTH 2 M.R.FONTES JRNL TITL CRYSTAL STRUCTURE OF AN ACIDIC PLATELET AGGREGATION JRNL TITL 2 INHIBITOR AND HYPOTENSIVE PHOSPHOLIPASE A(2) IN THE JRNL TITL 3 MONOMERIC AND DIMERIC STATES: INSIGHTS INTO ITS OLIGOMERIC JRNL TITL 4 STATE JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 323 24 2004 JRNL REFN ISSN 0006-291X JRNL PMID 15351695 JRNL DOI 10.1016/J.BBRC.2004.08.046 REMARK 2 REMARK 2 RESOLUTION. 1.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 8580 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 429 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) : 1.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 556 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE SET COUNT : 18 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 949 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 144 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.02000 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): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.115 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 978 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 790 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1322 ; 2.048 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1868 ; 1.017 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 121 ; 7.136 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 130 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1104 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 201 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 247 ; 0.238 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 982 ; 0.270 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 527 ; 0.106 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 144 ; 0.231 ; 0.500 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): 19 ; 0.235 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 68 ; 0.280 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.251 ; 0.500 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): 599 ; 1.716 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 958 ; 2.659 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 379 ; 1.858 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 364 ; 2.824 ; 3.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1UMV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-AUG-03. REMARK 100 THE DEPOSITION ID IS D_1290013399. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5370 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9034 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.15300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1GOD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 45.23000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.23000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 19.99500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.99500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 19.99500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.99500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.23000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 19.99500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 26.99500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.23000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 19.99500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 26.99500 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 BIOMT1 2 -1.000000 0.000000 0.000000 39.99000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.23000 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 ND2 ASN X 10 O HOH X 2008 2.02 REMARK 500 O SER X 23 O HOH X 2025 2.11 REMARK 500 N GLY X 56 O HOH X 2068 2.13 REMARK 500 O TYR X 64 O HOH X 2080 2.15 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 TYR X 51 CE2 TYR X 51 CD2 -0.092 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 ARG X 90 CG - CD - NE ANGL. DEV. = -17.5 DEGREES REMARK 500 ARG X 90 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG X 90 NE - CZ - NH2 ANGL. DEV. = -9.4 DEGREES REMARK 500 ASP X 98 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES 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 CYS X 28 GLY X 29 -146.97 REMARK 500 REMARK 500 REMARK: NULL 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 X1123 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR X 27 O REMARK 620 2 GLY X 31 N 133.6 REMARK 620 3 GLY X 32 N 134.2 51.2 REMARK 620 4 ASP X 48 OD1 101.4 73.0 118.4 REMARK 620 5 ASP X 48 OD2 145.9 63.0 79.9 50.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA X1123 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GOD RELATED DB: PDB REMARK 900 STRUCTURE OF MONOMERIC LYS-49 PHOSPHOLIPASE A2 HOMOLOGUE ISOLATED REMARK 900 FROM THE VENOM OF CERROPHIDION (BOTHROPS) GODMANI DBREF 1UMV X 1 122 UNP Q8AXY1 Q8AXY1 17 138 SEQADV 1UMV ASN X 58 UNP Q8AXY1 ASP 74 CONFLICT SEQADV 1UMV ASN X 79 UNP Q8AXY1 ASP 95 CONFLICT SEQRES 1 X 122 SER LEU TRP GLN PHE GLY LYS MET ILE ASN TYR VAL MET SEQRES 2 X 122 GLY GLU SER GLY VAL LEU GLN TYR LEU SER TYR GLY CYS SEQRES 3 X 122 TYR CYS GLY LEU GLY GLY GLN GLY GLN PRO THR ASP ALA SEQRES 4 X 122 THR ASP ARG CYS CYS PHE VAL HIS ASP CYS CYS TYR GLY SEQRES 5 X 122 LYS VAL THR GLY CYS ASN PRO LYS ILE ASP SER TYR THR SEQRES 6 X 122 TYR SER LYS LYS ASN GLY ASP VAL VAL CYS GLY GLY ASP SEQRES 7 X 122 ASN PRO CYS LYS LYS GLN ILE CYS GLU CYS ASP ARG VAL SEQRES 8 X 122 ALA THR THR CYS PHE ARG ASP ASN LYS ASP THR TYR ASP SEQRES 9 X 122 ILE LYS TYR TRP PHE TYR GLY ALA LYS ASN CYS GLN GLU SEQRES 10 X 122 LYS SER GLU PRO CYS HET CA X1123 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *144(H2 O) HELIX 1 1 SER X 1 GLY X 14 1 14 HELIX 2 2 SER X 16 LEU X 22 1 7 HELIX 3 3 ASP X 38 LYS X 53 1 16 HELIX 4 4 ASN X 79 ASN X 99 1 21 HELIX 5 5 LYS X 100 TYR X 103 5 4 HELIX 6 6 ASP X 104 TYR X 107 5 4 HELIX 7 7 GLY X 111 CYS X 115 5 5 SHEET 1 XA 2 TYR X 66 LYS X 69 0 SHEET 2 XA 2 ASP X 72 CYS X 75 -1 O ASP X 72 N LYS X 69 SSBOND 1 CYS X 26 CYS X 115 1555 1555 2.01 SSBOND 2 CYS X 28 CYS X 44 1555 1555 2.01 SSBOND 3 CYS X 43 CYS X 95 1555 1555 2.02 SSBOND 4 CYS X 49 CYS X 122 1555 1555 2.03 SSBOND 5 CYS X 50 CYS X 88 1555 1555 2.04 SSBOND 6 CYS X 57 CYS X 81 1555 1555 2.02 SSBOND 7 CYS X 75 CYS X 86 1555 1555 2.00 LINK O TYR X 27 CA CA X1123 1555 1555 2.47 LINK N GLY X 31 CA CA X1123 1555 1555 3.32 LINK N GLY X 32 CA CA X1123 1555 1555 2.88 LINK OD1 ASP X 48 CA CA X1123 1555 1555 2.67 LINK OD2 ASP X 48 CA CA X1123 1555 1555 2.51 SITE 1 AC1 6 TYR X 27 GLY X 29 LEU X 30 GLY X 31 SITE 2 AC1 6 GLY X 32 ASP X 48 CRYST1 39.990 53.990 90.460 90.00 90.00 90.00 C 2 2 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 0.025006 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018522 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011055 0.00000 TER 950 CYS X 122 HETATM 951 CA CA X1123 18.183 23.907 30.169 1.00 60.17 CA HETATM 952 O HOH X2001 28.370 7.973 34.552 1.00 19.82 O HETATM 953 O HOH X2002 22.941 7.238 28.265 1.00 25.17 O HETATM 954 O HOH X2003 25.095 5.398 32.440 1.00 16.07 O HETATM 955 O HOH X2004 25.009 3.619 36.558 1.00 21.14 O HETATM 956 O HOH X2005 18.155 2.255 30.459 1.00 31.02 O HETATM 957 O HOH X2006 23.586 1.365 25.597 1.00 36.37 O HETATM 958 O HOH X2007 13.068 1.096 27.865 1.00 24.76 O HETATM 959 O HOH X2008 15.931 6.612 26.021 1.00 21.71 O HETATM 960 O HOH X2009 16.080 0.883 29.914 1.00 25.96 O HETATM 961 O HOH X2010 32.174 5.088 47.278 1.00 28.31 O HETATM 962 O HOH X2011 18.996 18.465 48.108 1.00 34.12 O HETATM 963 O HOH X2012 15.313 21.215 42.324 1.00 22.21 O HETATM 964 O HOH X2013 0.905 22.655 26.638 1.00 26.11 O HETATM 965 O HOH X2014 4.388 22.606 34.769 1.00 25.99 O HETATM 966 O HOH X2015 13.711 5.463 18.375 1.00 28.49 O HETATM 967 O HOH X2016 3.543 24.237 33.025 1.00 34.76 O HETATM 968 O HOH X2017 16.323 7.717 21.955 1.00 17.43 O HETATM 969 O HOH X2018 20.897 28.058 38.778 1.00 30.16 O HETATM 970 O HOH X2019 6.296 14.580 28.626 1.00 14.15 O HETATM 971 O HOH X2020 26.767 17.554 49.689 1.00 34.32 O HETATM 972 O HOH X2021 19.770 19.774 24.326 1.00 38.46 O HETATM 973 O HOH X2022 25.745 21.226 35.136 1.00 33.95 O HETATM 974 O HOH X2023 29.891 22.628 33.936 1.00 31.85 O HETATM 975 O HOH X2024 17.192 21.584 18.990 1.00 40.83 O HETATM 976 O HOH X2025 14.626 16.068 21.801 1.00 37.53 O HETATM 977 O HOH X2026 30.634 5.403 40.496 1.00 34.89 O HETATM 978 O HOH X2027 16.014 22.620 24.334 1.00 32.05 O HETATM 979 O HOH X2028 14.652 22.061 21.565 1.00 19.26 O HETATM 980 O HOH X2029 15.937 25.391 22.244 1.00 22.55 O HETATM 981 O HOH X2030 17.173 27.136 24.325 1.00 21.63 O HETATM 982 O HOH X2031 18.431 23.401 26.583 1.00 41.20 O HETATM 983 O HOH X2032 17.597 20.408 32.311 1.00 15.98 O HETATM 984 O HOH X2033 20.440 24.662 26.098 1.00 32.07 O HETATM 985 O HOH X2034 22.627 25.146 33.110 1.00 38.67 O HETATM 986 O HOH X2035 31.821 7.602 48.153 1.00 21.22 O HETATM 987 O HOH X2036 20.056 28.022 31.679 1.00 31.00 O HETATM 988 O HOH X2037 19.100 14.296 47.746 1.00 24.87 O HETATM 989 O HOH X2038 19.280 35.020 23.523 1.00 43.50 O HETATM 990 O HOH X2039 17.821 16.297 46.552 1.00 23.00 O HETATM 991 O HOH X2040 16.427 20.721 45.013 1.00 34.41 O HETATM 992 O HOH X2041 20.144 23.286 48.216 1.00 40.47 O HETATM 993 O HOH X2042 13.985 16.327 45.079 1.00 33.11 O HETATM 994 O HOH X2043 14.229 18.786 41.228 1.00 12.91 O HETATM 995 O HOH X2044 10.823 35.383 33.180 1.00 18.10 O HETATM 996 O HOH X2045 7.872 32.718 32.995 1.00 16.54 O HETATM 997 O HOH X2046 6.157 32.265 29.536 1.00 18.12 O HETATM 998 O HOH X2047 8.986 29.939 24.991 1.00 22.91 O HETATM 999 O HOH X2048 6.498 29.715 30.317 1.00 28.09 O HETATM 1000 O HOH X2049 5.888 29.743 26.966 1.00 36.76 O HETATM 1001 O HOH X2050 1.751 22.029 28.909 1.00 18.64 O HETATM 1002 O HOH X2051 6.156 20.920 34.795 1.00 18.02 O HETATM 1003 O HOH X2052 4.365 19.257 27.869 1.00 14.81 O HETATM 1004 O HOH X2053 5.167 26.514 31.569 1.00 40.15 O HETATM 1005 O HOH X2054 4.481 27.086 36.608 1.00 35.20 O HETATM 1006 O HOH X2055 8.743 25.996 37.958 1.00 29.99 O HETATM 1007 O HOH X2056 12.266 18.239 36.971 1.00 13.23 O HETATM 1008 O HOH X2057 15.241 40.344 25.780 1.00 25.30 O HETATM 1009 O HOH X2058 17.441 37.133 35.884 1.00 32.97 O HETATM 1010 O HOH X2059 15.174 38.776 35.767 1.00 26.58 O HETATM 1011 O HOH X2060 13.432 25.447 39.661 1.00 32.05 O HETATM 1012 O HOH X2061 17.702 27.716 34.061 1.00 25.30 O HETATM 1013 O HOH X2062 20.338 27.181 36.316 1.00 41.87 O HETATM 1014 O HOH X2063 22.165 24.198 35.537 1.00 38.91 O HETATM 1015 O HOH X2064 19.705 26.934 40.697 1.00 18.79 O HETATM 1016 O HOH X2065 23.616 28.172 39.456 1.00 34.02 O HETATM 1017 O HOH X2066 25.524 20.106 46.840 1.00 27.78 O HETATM 1018 O HOH X2067 27.984 19.116 48.656 1.00 32.33 O HETATM 1019 O HOH X2068 30.466 22.354 44.107 1.00 44.21 O HETATM 1020 O HOH X2069 33.362 16.539 43.853 1.00 36.81 O HETATM 1021 O HOH X2070 34.046 17.600 36.688 1.00 29.63 O HETATM 1022 O HOH X2071 28.708 20.866 35.733 1.00 17.82 O HETATM 1023 O HOH X2072 31.363 19.610 33.334 1.00 37.26 O HETATM 1024 O HOH X2073 23.596 13.426 36.222 1.00 12.06 O HETATM 1025 O HOH X2074 31.695 9.811 36.084 1.00 22.78 O HETATM 1026 O HOH X2075 31.013 11.243 32.827 1.00 21.33 O HETATM 1027 O HOH X2076 34.231 15.946 38.428 1.00 30.59 O HETATM 1028 O HOH X2077 31.855 13.565 43.277 1.00 21.96 O HETATM 1029 O HOH X2078 33.604 11.675 38.183 1.00 23.89 O HETATM 1030 O HOH X2079 31.965 9.969 39.445 1.00 19.70 O HETATM 1031 O HOH X2080 27.475 4.883 39.712 1.00 31.52 O HETATM 1032 O HOH X2081 26.798 7.300 44.515 1.00 26.67 O HETATM 1033 O HOH X2082 21.190 0.951 37.378 1.00 42.62 O HETATM 1034 O HOH X2083 24.085 2.696 40.200 1.00 27.95 O HETATM 1035 O HOH X2084 23.818 3.907 34.071 1.00 31.93 O HETATM 1036 O HOH X2085 19.139 -1.612 38.867 1.00 31.55 O HETATM 1037 O HOH X2086 22.410 1.716 33.267 1.00 37.53 O HETATM 1038 O HOH X2087 13.302 -10.190 41.309 1.00 20.92 O HETATM 1039 O HOH X2088 12.633 -5.208 36.779 1.00 25.46 O HETATM 1040 O HOH X2089 8.045 3.259 34.177 1.00 35.98 O HETATM 1041 O HOH X2090 22.988 8.367 44.196 1.00 25.26 O HETATM 1042 O HOH X2091 20.672 6.311 50.059 1.00 29.39 O HETATM 1043 O HOH X2092 23.051 9.976 50.635 1.00 26.55 O HETATM 1044 O HOH X2093 28.345 5.644 53.922 1.00 20.53 O HETATM 1045 O HOH X2094 24.159 2.453 49.718 1.00 43.11 O HETATM 1046 O HOH X2095 29.740 7.887 52.387 1.00 20.47 O HETATM 1047 O HOH X2096 27.307 5.768 48.261 1.00 41.18 O HETATM 1048 O HOH X2097 28.818 3.968 49.779 1.00 30.77 O HETATM 1049 O HOH X2098 25.356 8.595 46.712 1.00 23.83 O HETATM 1050 O HOH X2099 29.509 7.315 49.774 1.00 20.65 O HETATM 1051 O HOH X2100 31.340 9.158 46.177 1.00 26.06 O HETATM 1052 O HOH X2101 30.514 13.799 45.352 1.00 18.84 O HETATM 1053 O HOH X2102 21.394 14.215 49.184 1.00 25.04 O HETATM 1054 O HOH X2103 32.908 10.885 42.101 1.00 40.84 O HETATM 1055 O HOH X2104 32.085 7.411 40.577 1.00 38.27 O HETATM 1056 O HOH X2105 23.967 17.171 49.036 1.00 21.09 O HETATM 1057 O HOH X2106 22.412 21.560 47.518 1.00 42.20 O HETATM 1058 O HOH X2107 19.556 20.078 43.875 1.00 21.86 O HETATM 1059 O HOH X2108 18.309 17.154 43.963 1.00 16.20 O HETATM 1060 O HOH X2109 15.473 16.998 43.048 1.00 23.24 O HETATM 1061 O HOH X2110 14.623 18.025 38.529 1.00 13.64 O HETATM 1062 O HOH X2111 10.796 7.692 40.796 1.00 16.84 O HETATM 1063 O HOH X2112 9.509 12.364 41.478 1.00 16.32 O HETATM 1064 O HOH X2113 5.315 10.426 37.044 1.00 24.99 O HETATM 1065 O HOH X2114 0.977 10.464 32.272 1.00 33.59 O HETATM 1066 O HOH X2115 2.687 10.610 37.171 1.00 27.46 O HETATM 1067 O HOH X2116 -0.711 15.580 33.608 1.00 46.93 O HETATM 1068 O HOH X2117 1.432 14.953 39.533 1.00 24.80 O HETATM 1069 O HOH X2118 4.342 16.934 37.233 1.00 34.60 O HETATM 1070 O HOH X2119 4.598 19.082 36.399 1.00 27.95 O HETATM 1071 O HOH X2120 -3.450 15.449 25.625 1.00 21.89 O HETATM 1072 O HOH X2121 0.424 13.128 31.181 1.00 31.88 O HETATM 1073 O HOH X2122 0.807 18.217 30.862 1.00 17.34 O HETATM 1074 O HOH X2123 2.592 21.253 24.799 1.00 15.53 O HETATM 1075 O HOH X2124 9.593 13.589 19.532 1.00 22.22 O HETATM 1076 O HOH X2125 0.093 17.261 22.080 0.50 14.53 O HETATM 1077 O HOH X2126 1.423 22.467 22.596 1.00 19.93 O HETATM 1078 O HOH X2127 9.075 19.154 14.834 1.00 26.53 O HETATM 1079 O HOH X2128 4.911 20.658 14.189 1.00 36.34 O HETATM 1080 O HOH X2129 2.214 25.289 22.964 1.00 32.05 O HETATM 1081 O HOH X2130 14.579 23.129 14.558 1.00 44.56 O HETATM 1082 O HOH X2131 13.322 33.764 19.627 1.00 30.56 O HETATM 1083 O HOH X2132 9.695 30.712 22.720 1.00 29.16 O HETATM 1084 O HOH X2133 12.174 24.739 15.674 1.00 37.17 O HETATM 1085 O HOH X2134 15.814 38.859 23.047 1.00 30.15 O HETATM 1086 O HOH X2135 10.069 33.393 21.224 1.00 35.72 O HETATM 1087 O HOH X2136 17.551 33.964 25.459 1.00 38.84 O HETATM 1088 O HOH X2137 12.501 39.181 25.704 1.00 17.87 O HETATM 1089 O HOH X2138 13.538 37.368 33.888 1.00 18.41 O HETATM 1090 O HOH X2139 17.991 36.341 30.033 1.00 26.93 O HETATM 1091 O HOH X2140 17.152 35.089 34.227 1.00 31.85 O HETATM 1092 O HOH X2141 17.283 30.364 33.358 1.00 33.19 O HETATM 1093 O HOH X2142 7.618 30.015 37.418 1.00 28.17 O HETATM 1094 O HOH X2143 11.489 30.694 38.386 1.00 25.77 O HETATM 1095 O HOH X2144 18.712 31.645 37.220 1.00 33.23 O CONECT 207 894 CONECT 211 951 CONECT 225 332 CONECT 238 951 CONECT 242 951 CONECT 326 714 CONECT 332 225 CONECT 367 951 CONECT 368 951 CONECT 374 949 CONECT 380 663 CONECT 429 607 CONECT 570 648 CONECT 607 429 CONECT 648 570 CONECT 663 380 CONECT 714 326 CONECT 894 207 CONECT 949 374 CONECT 951 211 238 242 367 CONECT 951 368 MASTER 344 0 1 7 2 0 2 6 1094 1 21 10 END