HEADER TOXIN 30-MAR-99 1CHV TITLE ELUCIDATION OF THE SOLUTION STRUCTURE OF CARDIOTOXIN ANALOGUE V FROM TITLE 2 THE TAIWAN COBRA (NAJA NAJA ATRA) VENOM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (CARDIOTOXIN ANALOGUE V); COMPND 3 CHAIN: S SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NAJA ATRA; SOURCE 3 ORGANISM_COMMON: CHINESE COBRA; SOURCE 4 ORGANISM_TAXID: 8656; SOURCE 5 OTHER_DETAILS: CTX V OBTAINED FROM THE SNAKE (NAJA NAJA ATRA) VENOM KEYWDS CARDIOTOXINS, CYTOTOXINS, TOXIN EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR G.JAYARAMAN,T.K.S.KUMAR,C.C.TSAI,C.YU REVDAT 5 27-DEC-23 1CHV 1 REMARK REVDAT 4 20-NOV-19 1CHV 1 JRNL REMARK REVDAT 3 24-FEB-09 1CHV 1 VERSN REVDAT 2 29-MAR-05 1CHV 1 JRNL REVDAT 1 30-MAR-00 1CHV 0 JRNL AUTH G.JAYARAMAN,T.K.S.KUMAR,C.C.TSAI,S.H.CHOU,C.L.HO,C.YU JRNL TITL ELUCIDATION OF THE SOLUTION STRUCTURE OF CARDIOTOXIN JRNL TITL 2 ANALOGUE V FROM THE TAIWAN COBRA (NAJA NAJA JRNL TITL 3 ATRA)--IDENTIFICATION OF STRUCTURAL FEATURES IMPORTANT FOR JRNL TITL 4 THE LETHAL ACTION OF SNAKE VENOM CARDIOTOXINS JRNL REF PROTEIN SCI. V. 9 637 2000 JRNL REFN ISSN 0961-8368 JRNL PMID 10794406 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.SIVARAMAN,T.K.KUMAR,P.W.YANG,C.YU REMARK 1 TITL CARDIOTOXIN-LIKE BASIC PROTEIN (CLBP) FROM NAJA NAJA ATRA IS REMARK 1 TITL 2 NOT A CARDIOTOXIN. REMARK 1 REF TOXICON V. 35 1367 1997 REMARK 1 REFN ISSN 0041-0101 REMARK 1 PMID 9403962 REMARK 1 DOI 10.1016/S0041-0101(96)00205-X REMARK 1 REFERENCE 2 REMARK 1 AUTH T.K.KUMAR,G.JAYARAMAN,C.S.LEE,A.I.ARUNKUMAR,T.SIVARAMAN, REMARK 1 AUTH 2 D.SAMUEL,C.YU REMARK 1 TITL SNAKE VENOM CARDIOTOXINS-STRUCTURE, DYNAMICS, FUNCTION AND REMARK 1 TITL 2 FOLDING. REMARK 1 REF J.BIOMOL.STRUCT.DYN. V. 15 431 1997 REMARK 1 REFN ISSN 0739-1102 REMARK 1 PMID 9439993 REMARK 1 DOI 10.1080/07391102.1997.10508957 REMARK 1 REFERENCE 3 REMARK 1 AUTH S.H.CHIOU,C.C.HUNG,H.C.HUANG,S.T.CHEN,K.T.WANG,C.C.YANG REMARK 1 TITL SEQUENCE COMPARISON AND COMPUTER MODELLING OF CARDIOTOXINS REMARK 1 TITL 2 AND COBROTOXIN ISOLATED FROM TAIWAN COBRA. REMARK 1 REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 206 22 1995 REMARK 1 REFN ISSN 0006-291X REMARK 1 PMID 7818523 REMARK 1 DOI 10.1006/BBRC.1995.1004 REMARK 1 REFERENCE 4 REMARK 1 AUTH M.TAKECHI,Y.TANAKA,K.HAYASHI REMARK 1 TITL AMINO ACID SEQUENCE OF A CARDIOTOXIN-LIKE BASIC POLYPEPTIDE REMARK 1 TITL 2 (CLBP) WITH LOW CYTOTOXIC ACTIVITY ISOLATED FROM THE VENOM REMARK 1 TITL 3 OF THE FORMOSAN COBRA (NAJA NAJA ATRA). REMARK 1 REF BIOCHEM.INT. V. 11 795 1985 REMARK 1 REFN ISSN 0158-5231 REMARK 1 PMID 4091854 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : NILGES,KUSEWSKI,BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINE.INP REMARK 4 REMARK 4 1CHV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-99. REMARK 100 THE DEPOSITION ID IS D_1000000756. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 3.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 90% H2O AND 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; TOCSY; NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX600 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 : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: MEAN STRUCTURE. NULL 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: S 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: 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 TYR S 11 CB - CG - CD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ALA S 16 CB - CA - C ANGL. DEV. = 10.0 DEGREES REMARK 500 TYR S 22 CB - CG - CD2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG S 36 NH1 - CZ - NH2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG S 36 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 VAL S 41 CB - CA - C ANGL. DEV. = 12.3 DEGREES REMARK 500 LYS S 50 CB - CA - C ANGL. DEV. = 13.7 DEGREES REMARK 500 TYR S 51 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP S 57 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES 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 LEU S 6 -138.31 64.24 REMARK 500 VAL S 7 -60.55 -132.41 REMARK 500 TYR S 11 110.57 45.11 REMARK 500 ALA S 16 -144.04 80.60 REMARK 500 ASN S 19 -65.43 -107.53 REMARK 500 LYS S 23 139.39 -177.42 REMARK 500 MET S 24 99.35 -67.09 REMARK 500 MET S 31 99.11 -66.13 REMARK 500 PRO S 33 106.97 -52.71 REMARK 500 VAL S 34 -107.54 -63.50 REMARK 500 ILE S 39 -102.79 -178.92 REMARK 500 ASP S 40 -32.35 -179.25 REMARK 500 CYS S 42 -59.97 -129.62 REMARK 500 PRO S 43 -128.07 -87.69 REMARK 500 LYS S 44 -158.12 50.55 REMARK 500 SER S 46 -83.79 -85.91 REMARK 500 LEU S 47 -88.07 -175.18 REMARK 500 VAL S 49 87.22 -151.98 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 LYS S 2 CYS S 3 -147.46 REMARK 500 LYS S 5 LEU S 6 -147.30 REMARK 500 LYS S 18 ASN S 19 -137.50 REMARK 500 VAL S 49 LYS S 50 149.62 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 TYR S 22 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1CHV S 1 60 UNP P07525 CX5T_NAJAT 1 60 SEQRES 1 S 60 LEU LYS CYS ASN LYS LEU VAL PRO LEU PHE TYR LYS THR SEQRES 2 S 60 CYS PRO ALA GLY LYS ASN LEU CYS TYR LYS MET PHE MET SEQRES 3 S 60 VAL SER ASN LYS MET VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 S 60 ASP VAL CYS PRO LYS SER SER LEU LEU VAL LYS TYR VAL SEQRES 5 S 60 CYS CYS ASN THR ASP ARG CYS ASN SHEET 1 A 3 VAL S 32 CYS S 38 0 SHEET 2 A 3 CYS S 21 MET S 26 -1 O TYR S 22 N GLY S 37 SHEET 3 A 3 LYS S 50 TYR S 51 -1 O LYS S 50 N PHE S 25 SSBOND 1 CYS S 3 CYS S 21 1555 1555 2.12 SSBOND 2 CYS S 14 CYS S 38 1555 1555 2.11 SSBOND 3 CYS S 42 CYS S 53 1555 1555 2.04 SSBOND 4 CYS S 54 CYS S 59 1555 1555 2.01 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