PDB Short entry for 1IJC HEADER TOXIN 25-APR-01 1IJC TITLE SOLUTION STRUCTURE OF BUCANDIN, A NEUROTOXIN FROM THE VENOM OF THE TITLE 2 MALAYAN KRAIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: BUCANDIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BUNGARUS CANDIDUS; SOURCE 3 ORGANISM_TAXID: 92438; SOURCE 4 SECRETION: VENOM KEYWDS THREE-FINGER MOTIF, TWO ANTIPARALLEL BETA-SHEETS, TWO AND FOUR KEYWDS 2 STRANDED BETA-SHEETS, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.M.TORRES,R.M.KINI,S.NIRTHANAN,P.W.KUCHEL REVDAT 3 23-FEB-22 1IJC 1 REMARK REVDAT 2 24-FEB-09 1IJC 1 VERSN REVDAT 1 21-DEC-01 1IJC 0 JRNL AUTH A.M.TORRES,R.M.KINI,N.SELVANAYAGAM,P.W.KUCHEL JRNL TITL NMR STRUCTURE OF BUCANDIN, A NEUROTOXIN FROM THE VENOM OF JRNL TITL 2 THE MALAYAN KRAIT (BUNGARUS CANDIDUS). JRNL REF BIOCHEM.J. V. 360 539 2001 JRNL REFN ISSN 0264-6021 JRNL PMID 11736642 JRNL DOI 10.1042/0264-6021:3600539 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.KUHN,A.M.DEACON,S.COMOSO,G.RAJASEGER,R.M.KINI,I.USON, REMARK 1 AUTH 2 P.R.KOLATKAR REMARK 1 TITL THE ATOMIC RESOLUTION STRUCTURE OF BUCANDIN, A NOVEL TOXIN REMARK 1 TITL 2 ISOLATED FROM THE MALAYAN KRAIT, DETERMINED BY DIRECT REMARK 1 TITL 3 METHODS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 56 1401 2000 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444900011501 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, X-PLOR 3.843 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER, A.T. (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1363 RESTRAINTS, 1258 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 61 REMARK 3 DIHEDRAL ANGLE RESTRAINTS, 44 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS. REMARK 4 REMARK 4 1IJC COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-01. REMARK 100 THE DEPOSITION ID IS D_1000013328. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 3.0 REMARK 210 IONIC STRENGTH : NO SALT ADDED REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.7 MM BUCANDIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3.13, INFIT, NOAH, DYANA REMARK 210 1.5, X-PLOR 3.843 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS, REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 6000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 10 REMARK 210 REMARK 210 REMARK: THE STRUCTURES WERE DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES. 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 HE1 TRP A 27 HG13 VAL A 51 1.21 REMARK 500 HH TYR A 52 HE2 LYS A 54 1.22 REMARK 500 HG2 ARG A 5 HG21 ILE A 15 1.23 REMARK 500 HD21 ASN A 50 H VAL A 51 1.28 REMARK 500 HG12 ILE A 15 H THR A 16 1.29 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 SER A 9 -16.18 -142.90 REMARK 500 1 SER A 18 165.36 -48.20 REMARK 500 1 ALA A 19 -8.88 -55.83 REMARK 500 1 LYS A 30 19.21 -64.89 REMARK 500 1 ASN A 33 30.93 37.38 REMARK 500 1 GLU A 45 132.80 -35.80 REMARK 500 1 THR A 48 -132.81 -99.80 REMARK 500 1 THR A 58 -161.90 -107.18 REMARK 500 1 LEU A 60 51.49 13.27 REMARK 500 1 ASN A 62 70.90 -117.19 REMARK 500 2 CYS A 17 -152.27 -72.80 REMARK 500 2 LYS A 30 36.89 -75.50 REMARK 500 2 CYS A 43 153.25 -44.42 REMARK 500 2 THR A 44 23.62 -140.14 REMARK 500 2 GLU A 45 132.31 -34.65 REMARK 500 2 THR A 48 -138.14 -126.64 REMARK 500 2 LEU A 60 60.60 20.07 REMARK 500 3 SER A 9 -4.68 -150.08 REMARK 500 3 CYS A 17 170.96 -58.58 REMARK 500 3 ALA A 19 -26.74 -35.29 REMARK 500 3 ASN A 33 27.39 36.25 REMARK 500 3 THR A 48 -139.47 -100.20 REMARK 500 3 ASN A 59 159.11 -39.17 REMARK 500 3 LEU A 60 55.94 13.10 REMARK 500 3 ASN A 62 75.85 -111.68 REMARK 500 4 CYS A 3 -168.57 -108.82 REMARK 500 4 VAL A 8 -58.91 74.17 REMARK 500 4 ALA A 19 -36.74 85.64 REMARK 500 4 GLU A 20 -67.71 -95.52 REMARK 500 4 ILE A 31 -62.54 -133.10 REMARK 500 4 ASN A 33 22.04 37.95 REMARK 500 4 GLU A 45 139.63 -34.76 REMARK 500 4 ASP A 47 77.90 -101.41 REMARK 500 4 THR A 48 -124.68 -100.04 REMARK 500 4 LEU A 60 54.52 13.99 REMARK 500 5 HIS A 12 50.64 -117.20 REMARK 500 5 ILE A 31 -61.20 -103.89 REMARK 500 5 ASN A 33 16.73 87.98 REMARK 500 5 THR A 42 -158.55 -102.64 REMARK 500 5 GLU A 45 123.68 -38.75 REMARK 500 5 THR A 48 -132.45 -109.28 REMARK 500 5 LEU A 60 51.23 16.09 REMARK 500 6 ALA A 19 -37.07 -29.88 REMARK 500 6 THR A 22 -1.14 -140.11 REMARK 500 6 ASN A 33 14.55 48.44 REMARK 500 6 THR A 48 -129.22 -120.57 REMARK 500 6 LEU A 60 51.53 13.92 REMARK 500 7 ALA A 19 -31.12 72.04 REMARK 500 7 GLU A 20 -62.37 -108.17 REMARK 500 7 ILE A 31 -60.40 -100.70 REMARK 500 REMARK 500 THIS ENTRY HAS 139 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1F94 RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF BUCANDIN DBREF 1IJC A 1 63 UNP P81782 BUCA_BUNCA 1 63 SEQRES 1 A 63 MET GLU CYS TYR ARG CYS GLY VAL SER GLY CYS HIS LEU SEQRES 2 A 63 LYS ILE THR CYS SER ALA GLU GLU THR PHE CYS TYR LYS SEQRES 3 A 63 TRP LEU ASN LYS ILE SER ASN GLU ARG TRP LEU GLY CYS SEQRES 4 A 63 ALA LYS THR CYS THR GLU ILE ASP THR TRP ASN VAL TYR SEQRES 5 A 63 ASN LYS CYS CYS THR THR ASN LEU CYS ASN THR SHEET 1 A 2 GLU A 2 ARG A 5 0 SHEET 2 A 2 LEU A 13 THR A 16 -1 N LEU A 13 O ARG A 5 SHEET 1 B 4 GLU A 34 ALA A 40 0 SHEET 2 B 4 PHE A 23 ASN A 29 -1 N PHE A 23 O ALA A 40 SHEET 3 B 4 VAL A 51 CYS A 56 -1 N TYR A 52 O LEU A 28 SHEET 4 B 4 ILE A 46 ASP A 47 -1 N ILE A 46 O ASN A 53 SSBOND 1 CYS A 3 CYS A 24 1555 1555 2.03 SSBOND 2 CYS A 6 CYS A 11 1555 1555 2.03 SSBOND 3 CYS A 17 CYS A 39 1555 1555 2.03 SSBOND 4 CYS A 43 CYS A 55 1555 1555 2.03 SSBOND 5 CYS A 56 CYS A 61 1555 1555 2.03 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