HEADER TOXIN 21-NOV-03 1V56 OBSLTE 20-APR-16 1V56 TITLE THREE-DIMENSIONAL SOLUTION STRUCTURE OF SPINOXIN, A POTASSIUM CHANNEL TITLE 2 BLOCKER COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPINOXIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THIS SOURCE 4 SEQUENCE OCCURS NATURALLY IN HETEROMETRUS SPINIFER. KEYWDS TOXIN, VENOM OF SCORPION, POTASSIUM CHANNEL BLOCKER, DISULFIDE BOND EXPDTA SOLUTION NMR NUMMDL 18 AUTHOR K.KOBAYASHI,Y.SUGAHARA,S.NIRTHANAN,I.HUYS,P.GOPALAKRISHNAKONE, AUTHOR 2 J.TYTGAT,K.SATO,T.KOHNO REVDAT 3 20-APR-16 1V56 1 OBSLTE REMARK VERSN REVDAT 2 24-FEB-09 1V56 1 VERSN REVDAT 1 01-MAR-05 1V56 0 JRNL AUTH K.KOBAYASHI,Y.SUGAHARA,S.NIRTHANAN,I.HUYS, JRNL AUTH 2 P.GOPALAKRISHNAKONE,J.TYTGAT,K.SATO,T.KOHNO JRNL TITL THREE-DIMENSIONAL SOLUTION STRUCTURE OF SPINOXIN, A JRNL TITL 2 POTASSIUM CHANNEL BLOCKER JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 748 RESTRAINTS, 721 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 19 REMARK 3 DIHEDRAL ANGLE RESTRAINTS, 8 DISTANCE RESTRAINTS FROM DISULFIDE REMARK 3 BONDS. REMARK 4 REMARK 4 1V56 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 5 REMARK 5 THE ATUHOR STATED THAT THE DISULFIDES PATTERN OF THIS PEPTIDE WAS REMARK 5 INCORRECT. REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-NOV-03. REMARK 100 THE RCSB ID CODE IS RCSB006219. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 4.0 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 5MM SPINOXIN; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY; 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, NMRPIPE 2003 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS, REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 18 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS 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: 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 8 TYR A 32 CE1 TYR A 32 CZ 0.110 REMARK 500 8 TYR A 32 CZ TYR A 32 CE2 -0.119 REMARK 500 10 TYR A 32 CE1 TYR A 32 CZ 0.092 REMARK 500 10 TYR A 32 CZ TYR A 32 CE2 -0.097 REMARK 500 11 TYR A 32 CZ TYR A 32 CE2 -0.085 REMARK 500 12 TYR A 32 CE1 TYR A 32 CZ 0.120 REMARK 500 12 TYR A 32 CZ TYR A 32 CE2 -0.123 REMARK 500 17 TYR A 32 CE1 TYR A 32 CZ 0.095 REMARK 500 17 TYR A 32 CZ TYR A 32 CE2 -0.102 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 GLN A 16 -71.85 -60.46 REMARK 500 1 THR A 17 22.14 -143.96 REMARK 500 1 ASN A 26 61.31 -156.29 REMARK 500 2 GLN A 16 -73.24 -63.16 REMARK 500 2 THR A 17 16.27 -143.29 REMARK 500 2 ASN A 26 64.91 -156.93 REMARK 500 3 THR A 17 17.86 -141.17 REMARK 500 3 ASN A 26 61.10 -151.87 REMARK 500 4 GLN A 16 -72.73 -57.32 REMARK 500 4 THR A 17 17.51 -144.72 REMARK 500 4 ASN A 26 61.09 -150.62 REMARK 500 5 GLN A 16 -70.66 -58.78 REMARK 500 5 THR A 17 20.18 -145.02 REMARK 500 5 ASN A 26 59.86 -140.30 REMARK 500 6 GLN A 16 -72.75 -56.38 REMARK 500 6 THR A 17 24.23 -143.89 REMARK 500 6 LYS A 23 111.27 -160.79 REMARK 500 7 SER A 4 38.41 -141.64 REMARK 500 7 GLN A 16 -71.32 -63.06 REMARK 500 7 THR A 17 22.31 -143.74 REMARK 500 7 ASN A 26 57.42 -153.31 REMARK 500 8 GLN A 16 -72.98 -57.74 REMARK 500 8 THR A 17 26.06 -146.29 REMARK 500 8 ASN A 26 64.33 -159.49 REMARK 500 9 GLN A 16 -72.98 -62.53 REMARK 500 9 THR A 17 12.95 -141.56 REMARK 500 9 ASN A 26 62.52 -163.60 REMARK 500 10 GLN A 16 -70.42 -58.47 REMARK 500 10 THR A 17 25.45 -143.75 REMARK 500 10 ILE A 25 -61.04 -101.06 REMARK 500 11 SER A 4 41.93 -140.68 REMARK 500 11 GLN A 16 -70.21 -62.64 REMARK 500 11 THR A 17 18.84 -142.85 REMARK 500 11 ILE A 25 -67.37 -100.36 REMARK 500 12 GLN A 16 -71.21 -53.61 REMARK 500 12 THR A 17 27.45 -144.66 REMARK 500 12 ILE A 25 -63.63 -101.52 REMARK 500 13 THR A 17 20.44 -142.52 REMARK 500 13 ASN A 26 68.70 -170.00 REMARK 500 14 GLN A 16 -72.96 -58.08 REMARK 500 14 THR A 17 26.76 -144.50 REMARK 500 15 SER A 4 44.98 -141.68 REMARK 500 15 THR A 17 18.01 -144.40 REMARK 500 15 ASN A 26 51.95 -156.08 REMARK 500 16 GLN A 16 -71.29 -61.04 REMARK 500 16 THR A 17 20.94 -145.06 REMARK 500 17 SER A 4 44.19 -140.38 REMARK 500 17 GLN A 16 -70.94 -57.47 REMARK 500 17 THR A 17 20.74 -143.13 REMARK 500 17 ASN A 26 68.53 -165.63 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 35 DBREF 1V56 A 1 35 PDB 1V56 1V56 1 35 SEQRES 1 A 35 ILE ARG CYS SER GLY SER ARG ASP CYS TYR SER PRO CYS SEQRES 2 A 35 MET LYS GLN THR GLY CYS PRO ASN ALA LYS CYS ILE ASN SEQRES 3 A 35 LYS SER CYS LYS CYS TYR GLY CYS NH2 HET NH2 A 35 3 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N HELIX 1 1 SER A 6 ASP A 8 5 3 HELIX 2 2 CYS A 9 GLY A 18 1 10 SHEET 1 A 2 ALA A 22 CYS A 24 0 SHEET 2 A 2 CYS A 29 CYS A 31 -1 O LYS A 30 N LYS A 23 SSBOND 1 CYS A 3 CYS A 24 1555 1555 2.03 SSBOND 2 CYS A 9 CYS A 29 1555 1555 2.03 SSBOND 3 CYS A 13 CYS A 19 1555 1555 2.02 SSBOND 4 CYS A 31 CYS A 34 1555 1555 2.03 LINK C CYS A 34 N NH2 A 35 1555 1555 1.33 SITE 1 AC1 3 TYR A 32 GLY A 33 CYS A 34 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