HEADER HYDROLASE 14-SEP-98 1BVM TITLE SOLUTION NMR STRUCTURE OF BOVINE PANCREATIC PHOSPHOLIPASE A2, 20 TITLE 2 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PHOSPHOLIPASE A2); COMPND 3 CHAIN: A; COMPND 4 EC: 3.1.1.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)[PLYSS]; SOURCE 8 OTHER_DETAILS: BOVINE PANCREAS KEYWDS PHOSPHOLIPASE A2, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.-H.YUAN,I.-J.L.BYEON,Y.LI,M.-D.TSAI REVDAT 6 30-OCT-24 1BVM 1 REMARK REVDAT 5 27-DEC-23 1BVM 1 REMARK REVDAT 4 16-FEB-22 1BVM 1 REMARK SEQADV REVDAT 3 24-FEB-09 1BVM 1 VERSN REVDAT 2 01-APR-03 1BVM 1 JRNL REVDAT 1 16-SEP-99 1BVM 0 JRNL AUTH C.YUAN,I.J.BYEON,Y.LI,M.D.TSAI JRNL TITL STRUCTURAL ANALYSIS OF PHOSPHOLIPASE A2 FROM FUNCTIONAL JRNL TITL 2 PERSPECTIVE. 1. FUNCTIONALLY RELEVANT SOLUTION STRUCTURE AND JRNL TITL 3 ROLES OF THE HYDROGEN-BONDING NETWORK. JRNL REF BIOCHEMISTRY V. 38 2909 1999 JRNL REFN ISSN 0006-2960 JRNL PMID 10074343 JRNL DOI 10.1021/BI982211A REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BVM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000007109. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 300 MM NACL, 50 MM CACL2 REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : H2O AND D2O, 50 MM CACL2, 300 MM REMARK 210 NACL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D COSY; 2D TOCSY; 2D NOESY; 3D REMARK 210 HNCACB; 3D CBCA(CO)NH; 3D HN(CO) REMARK 210 CA; 3D HNHA; 3D HNHB; 15N-EDITED REMARK 210 NOESY-HSQC; 15N-EDITED TOCSY- REMARK 210 HSQC; 13C-EDITED NOESY-HMQC; AND REMARK 210 13C-EDITED HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX 600; DRX 800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : CLOSEST TO THE MEAN STRUCTURE REMARK 210 WHICH SHOWS LITTLE RESTRAINT REMARK 210 VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: REMARK 210 THE SOLUTION STRUCTURE OF THE BOVINE PANCREATIC PHOSPHOLIPASE A2 REMARK 210 HAS BEEN REMARK 210 DETERMINED BY MULTI-DIMENSIONAL HETERONUCLEAR NMR. THE STRUCTURES REMARK 210 WERE REMARK 210 CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. REMARK 210 (1988) FEBS REMARK 210 LETT. 229, 129-136 USING THE PROGRAM X-PLOR 3.1 (BRUNGER). THE REMARK 210 CALCULATION IS REMARK 210 BASED ON 1937 EXPERIMENTAL NMR RESTRAINTS (1823 DISTANCE AND 114 - REMARK 210 RSION ANGLE REMARK 210 RESTRAINTS). REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 OD1 ASN A 89 H GLU A 92 1.45 REMARK 500 O SER A 76 H THR A 83 1.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 LEU A 2 -43.61 -174.65 REMARK 500 1 ASP A 21 -64.39 -168.42 REMARK 500 1 ASN A 24 73.08 34.98 REMARK 500 1 LEU A 31 -38.10 -136.61 REMARK 500 1 SER A 34 146.43 177.69 REMARK 500 1 VAL A 63 56.67 -117.40 REMARK 500 1 LEU A 64 -74.14 -126.45 REMARK 500 1 VAL A 65 22.34 -155.97 REMARK 500 1 ASP A 66 50.37 35.48 REMARK 500 1 ASN A 67 102.48 -173.99 REMARK 500 1 TYR A 69 -63.48 -94.47 REMARK 500 1 SER A 78 146.57 166.52 REMARK 500 1 ASN A 89 -174.19 -63.78 REMARK 500 2 PHE A 22 51.19 -95.30 REMARK 500 2 SER A 34 125.10 175.24 REMARK 500 2 LEU A 64 -68.94 -107.84 REMARK 500 2 VAL A 65 24.29 -157.17 REMARK 500 2 ASN A 67 105.66 -174.67 REMARK 500 2 ASN A 71 150.49 -45.71 REMARK 500 2 SER A 78 148.64 167.48 REMARK 500 3 PHE A 22 -45.57 -156.09 REMARK 500 3 SER A 34 110.19 179.00 REMARK 500 3 VAL A 38 -44.04 -140.36 REMARK 500 3 LEU A 64 -76.88 -130.24 REMARK 500 3 ASP A 66 149.83 -37.06 REMARK 500 3 TYR A 75 -175.66 -170.48 REMARK 500 3 SER A 78 158.24 165.27 REMARK 500 3 ASN A 89 -175.37 -65.75 REMARK 500 3 ASN A 112 81.51 -63.69 REMARK 500 4 PHE A 22 40.89 -89.23 REMARK 500 4 CYS A 29 93.68 -50.06 REMARK 500 4 LEU A 64 -67.85 -104.33 REMARK 500 4 VAL A 65 22.78 -154.57 REMARK 500 4 ASP A 66 57.92 39.26 REMARK 500 4 ASN A 67 80.78 -174.48 REMARK 500 4 THR A 70 28.27 -174.13 REMARK 500 4 ASN A 72 99.55 -56.24 REMARK 500 4 SER A 78 145.92 169.33 REMARK 500 5 LEU A 2 -44.16 -131.45 REMARK 500 5 ILE A 13 77.98 -113.65 REMARK 500 5 ASP A 21 -48.97 -145.76 REMARK 500 5 ASN A 24 84.77 44.08 REMARK 500 5 TYR A 28 -62.49 -93.11 REMARK 500 5 CYS A 29 93.96 -47.08 REMARK 500 5 SER A 34 155.85 174.13 REMARK 500 5 VAL A 63 -31.11 -159.21 REMARK 500 5 VAL A 65 27.12 -156.73 REMARK 500 5 ASP A 66 146.75 -34.91 REMARK 500 5 ASN A 67 78.24 60.93 REMARK 500 5 TYR A 73 120.72 63.24 REMARK 500 REMARK 500 THIS ENTRY HAS 245 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 43 0.20 SIDE CHAIN REMARK 500 1 ARG A 100 0.09 SIDE CHAIN REMARK 500 2 ARG A 100 0.19 SIDE CHAIN REMARK 500 3 ARG A 43 0.10 SIDE CHAIN REMARK 500 3 ARG A 100 0.31 SIDE CHAIN REMARK 500 4 ARG A 43 0.17 SIDE CHAIN REMARK 500 4 ARG A 100 0.32 SIDE CHAIN REMARK 500 5 ARG A 43 0.32 SIDE CHAIN REMARK 500 5 ARG A 100 0.10 SIDE CHAIN REMARK 500 6 ARG A 43 0.29 SIDE CHAIN REMARK 500 6 ARG A 100 0.24 SIDE CHAIN REMARK 500 7 ARG A 43 0.16 SIDE CHAIN REMARK 500 7 ARG A 100 0.31 SIDE CHAIN REMARK 500 8 ARG A 43 0.27 SIDE CHAIN REMARK 500 8 ARG A 100 0.18 SIDE CHAIN REMARK 500 9 ARG A 43 0.26 SIDE CHAIN REMARK 500 9 ARG A 100 0.29 SIDE CHAIN REMARK 500 10 ARG A 43 0.23 SIDE CHAIN REMARK 500 10 ARG A 100 0.32 SIDE CHAIN REMARK 500 11 ARG A 43 0.32 SIDE CHAIN REMARK 500 11 ARG A 100 0.31 SIDE CHAIN REMARK 500 12 ARG A 43 0.30 SIDE CHAIN REMARK 500 12 ARG A 100 0.27 SIDE CHAIN REMARK 500 13 ARG A 100 0.13 SIDE CHAIN REMARK 500 14 ARG A 43 0.28 SIDE CHAIN REMARK 500 14 ARG A 100 0.31 SIDE CHAIN REMARK 500 15 ARG A 43 0.30 SIDE CHAIN REMARK 500 15 ARG A 100 0.25 SIDE CHAIN REMARK 500 16 ARG A 43 0.22 SIDE CHAIN REMARK 500 17 ARG A 43 0.25 SIDE CHAIN REMARK 500 17 ARG A 100 0.19 SIDE CHAIN REMARK 500 18 ARG A 43 0.20 SIDE CHAIN REMARK 500 18 ARG A 100 0.21 SIDE CHAIN REMARK 500 19 ARG A 43 0.32 SIDE CHAIN REMARK 500 19 ARG A 100 0.30 SIDE CHAIN REMARK 500 20 ARG A 43 0.24 SIDE CHAIN REMARK 500 20 ARG A 100 0.22 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: 48 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: H48-D99 CATALYTIC DIAD REMARK 800 REMARK 800 SITE_IDENTIFIER: 99 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: H48-D99 CATALYTIC DIAD REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEE NOEL, J. P. ET AL.(1989) J. CELL. BIOCHEM. 40, 309-320. DBREF 1BVM A 1 123 UNP P00593 PA21B_BOVIN 23 145 SEQADV 1BVM ASN A 122 UNP P00593 LYS 144 VARIANT SEQRES 1 A 123 ALA LEU TRP GLN PHE ASN GLY MET ILE LYS CYS LYS ILE SEQRES 2 A 123 PRO SER SER GLU PRO LEU LEU ASP PHE ASN ASN TYR GLY SEQRES 3 A 123 CYS TYR CYS GLY LEU GLY GLY SER GLY THR PRO VAL ASP SEQRES 4 A 123 ASP LEU ASP ARG CYS CYS GLN THR HIS ASP ASN CYS TYR SEQRES 5 A 123 LYS GLN ALA LYS LYS LEU ASP SER CYS LYS VAL LEU VAL SEQRES 6 A 123 ASP ASN PRO TYR THR ASN ASN TYR SER TYR SER CYS SER SEQRES 7 A 123 ASN ASN GLU ILE THR CYS SER SER GLU ASN ASN ALA CYS SEQRES 8 A 123 GLU ALA PHE ILE CYS ASN CYS ASP ARG ASN ALA ALA ILE SEQRES 9 A 123 CYS PHE SER LYS VAL PRO TYR ASN LYS GLU HIS LYS ASN SEQRES 10 A 123 LEU ASP LYS LYS ASN CYS HELIX 1 H1 TRP A 3 ILE A 13 1 11 HELIX 2 H2 ASP A 40 LEU A 58 1 19 HELIX 3 H3 ASP A 59 VAL A 63 1 5 HELIX 4 H4 ALA A 90 LYS A 108 1 19 SHEET 1 S1 1 SER A 74 SER A 78 0 SHEET 1 S2 1 GLU A 81 SER A 85 0 SSBOND 1 CYS A 11 CYS A 77 1555 1555 2.02 SSBOND 2 CYS A 27 CYS A 123 1555 1555 2.02 SSBOND 3 CYS A 29 CYS A 45 1555 1555 2.02 SSBOND 4 CYS A 44 CYS A 105 1555 1555 2.02 SSBOND 5 CYS A 51 CYS A 98 1555 1555 2.02 SSBOND 6 CYS A 61 CYS A 91 1555 1555 2.02 SSBOND 7 CYS A 84 CYS A 96 1555 1555 2.02 SITE 1 48 1 HIS A 48 SITE 1 99 1 ASP A 99 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1