HEADER TOXIN 10-JAN-05 1WWN TITLE NMR SOLUTION STRUCTURE OF BMK-BETAIT, AN EXCITATORY SCORPION TOXIN TITLE 2 FROM BUTHUS MARTENSI KARSCH COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXCITATORY INSECT SELECTIVE TOXIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BMK IT1, BMKIT1, BMK IT, BMKIT, BM32-VI, NEUROTOXIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; SOURCE 3 ORGANISM_COMMON: CHINESE SCORPION; SOURCE 4 ORGANISM_TAXID: 34649 KEYWDS AN EXCITATORY SCORPION TOXIN, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.WU,X.TONG,X.CHEN,Q.ZHANG,X.ZHENG,N.ZHANG,G.WU REVDAT 5 23-OCT-24 1WWN 1 REMARK REVDAT 4 02-MAR-22 1WWN 1 REMARK REVDAT 3 24-FEB-09 1WWN 1 VERSN REVDAT 2 10-OCT-06 1WWN 1 JRNL REVDAT 1 17-JAN-06 1WWN 0 JRNL AUTH X.TONG,J.YAO,F.HE,X.CHEN,X.ZHENG,C.XIE,G.WU,N.ZHANG,J.DING, JRNL AUTH 2 H.WU JRNL TITL NMR SOLUTION STRUCTURE OF BMK-BETAIT, AN EXCITATORY SCORPION JRNL TITL 2 BETA-TOXIN WITHOUT A 'HOT SPOT' AT THE RELEVANT POSITION JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 349 890 2006 JRNL REFN ISSN 0006-291X JRNL PMID 16970911 JRNL DOI 10.1016/J.BBRC.2006.08.131 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1B, AMBER 5.0 REMARK 3 AUTHORS : MIKE CARLISLE, DAN STEELE, AND MIKE MILLER (VNMR), REMARK 3 PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM,FERGUSON,SEIBEL,SINGH, REMARK 3 WEINER,KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WWN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000024088. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 4.80 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2.0MM; 2.0MM REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1B, XEASY 1994, DYANA 1.5 REMARK 210 METHOD USED : THE STRUCTURE ARE BASED ON A REMARK 210 TOTAL OF 884 CONSTRAINTS, 814 REMARK 210 ARE NOE-DERIVED DISTANCE REMARK 210 CONSTRAINTS,26 DIHEDRAL ANGLE REMARK 210 CONSTRAINTS,44 DISTANCE REMARK 210 CONSTRAINTS FROM SIXTEEN REMARK 210 HYDROGEN BONDS AND FOUR REMARK 210 DISULFIDE BONDS. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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 : 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 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 1 TYR A 43 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 2 TYR A 5 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 2 CYS A 44 CA - CB - SG ANGL. DEV. = 8.3 DEGREES REMARK 500 3 CYS A 44 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 3 LEU A 47 CB - CG - CD2 ANGL. DEV. = 13.4 DEGREES REMARK 500 6 CYS A 44 CA - CB - SG ANGL. DEV. = 7.9 DEGREES REMARK 500 9 CYS A 44 CA - CB - SG ANGL. DEV. = 7.1 DEGREES REMARK 500 12 CYS A 16 CA - CB - SG ANGL. DEV. = 7.4 DEGREES REMARK 500 15 LYS A 61 CA - CB - CG ANGL. DEV. = 15.6 DEGREES REMARK 500 16 TYR A 5 CB - CG - CD2 ANGL. DEV. = -5.2 DEGREES REMARK 500 16 CYS A 44 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 17 TYR A 5 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 20 LEU A 47 CB - CG - CD1 ANGL. DEV. = 12.2 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 1 LYS A 2 -158.89 -130.28 REMARK 500 1 SER A 9 -12.35 -141.99 REMARK 500 1 SER A 10 52.22 -163.87 REMARK 500 1 GLU A 15 -120.65 46.71 REMARK 500 1 CYS A 16 66.54 111.96 REMARK 500 1 TYR A 31 31.43 74.34 REMARK 500 1 ALA A 32 160.53 -48.41 REMARK 500 1 CYS A 37 92.62 -69.41 REMARK 500 1 LEU A 39 -54.74 -16.21 REMARK 500 1 LEU A 40 24.60 -143.14 REMARK 500 1 CYS A 42 109.79 -59.78 REMARK 500 1 LEU A 47 108.07 -28.86 REMARK 500 1 ALA A 52 56.05 168.45 REMARK 500 1 ASP A 65 -69.28 -96.76 REMARK 500 1 GLN A 67 -61.10 -24.63 REMARK 500 2 LYS A 2 -149.53 -102.19 REMARK 500 2 ASN A 3 152.71 -49.12 REMARK 500 2 ASP A 8 -117.58 -77.76 REMARK 500 2 SER A 10 68.10 85.47 REMARK 500 2 CYS A 16 -179.51 56.91 REMARK 500 2 LEU A 17 -46.53 -130.21 REMARK 500 2 TYR A 31 51.10 83.62 REMARK 500 2 ALA A 32 -167.28 -78.37 REMARK 500 2 SER A 34 -162.73 -114.78 REMARK 500 2 LEU A 39 -57.37 -7.99 REMARK 500 2 LEU A 40 39.83 -152.52 REMARK 500 2 ASP A 48 -71.22 -96.16 REMARK 500 2 ALA A 52 70.83 42.07 REMARK 500 2 GLN A 67 -70.35 -43.42 REMARK 500 2 ILE A 68 -62.20 -93.38 REMARK 500 3 LYS A 2 -155.68 -88.06 REMARK 500 3 SER A 9 -47.01 -162.65 REMARK 500 3 GLU A 15 -84.84 -36.46 REMARK 500 3 CYS A 16 162.50 73.17 REMARK 500 3 ASN A 19 -64.71 -6.77 REMARK 500 3 LEU A 39 -62.37 -5.58 REMARK 500 3 LEU A 40 44.89 -154.29 REMARK 500 3 LEU A 47 75.04 -62.39 REMARK 500 3 ASP A 50 88.66 69.65 REMARK 500 3 ALA A 52 59.74 175.14 REMARK 500 3 ASP A 65 -55.60 -128.88 REMARK 500 3 GLN A 67 -66.76 -19.72 REMARK 500 4 LYS A 2 -84.97 -163.58 REMARK 500 4 ASP A 8 -109.50 -22.18 REMARK 500 4 SER A 10 -66.36 -154.22 REMARK 500 4 LYS A 12 127.88 -24.27 REMARK 500 4 CYS A 16 -178.16 161.03 REMARK 500 4 LEU A 39 -57.93 -13.59 REMARK 500 4 LEU A 40 48.50 -150.76 REMARK 500 4 SER A 41 -169.92 -168.74 REMARK 500 REMARK 500 THIS ENTRY HAS 247 RAMACHANDRAN OUTLIERS. 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 GLY A 11 LYS A 12 4 143.45 REMARK 500 ALA A 6 VAL A 7 6 149.50 REMARK 500 TYR A 31 ALA A 32 6 144.44 REMARK 500 GLY A 4 TYR A 5 7 146.63 REMARK 500 TYR A 31 ALA A 32 7 147.76 REMARK 500 ASP A 8 SER A 9 9 149.70 REMARK 500 TYR A 31 ALA A 32 10 139.98 REMARK 500 VAL A 13 SER A 14 12 149.99 REMARK 500 TYR A 31 ALA A 32 13 144.94 REMARK 500 ASP A 48 ASP A 49 13 147.43 REMARK 500 GLY A 11 LYS A 12 14 147.74 REMARK 500 ASP A 48 ASP A 49 14 141.81 REMARK 500 GLY A 11 LYS A 12 15 138.09 REMARK 500 LYS A 1 LYS A 2 17 -146.55 REMARK 500 LYS A 2 ASN A 3 17 147.58 REMARK 500 ASN A 3 GLY A 4 18 -148.91 REMARK 500 VAL A 7 ASP A 8 18 141.65 REMARK 500 ASP A 49 ASP A 50 19 145.81 REMARK 500 LYS A 55 ILE A 56 19 -147.73 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 TYR A 21 0.14 SIDE CHAIN REMARK 500 1 TYR A 30 0.11 SIDE CHAIN REMARK 500 1 TYR A 31 0.19 SIDE CHAIN REMARK 500 1 TYR A 36 0.07 SIDE CHAIN REMARK 500 1 TYR A 43 0.10 SIDE CHAIN REMARK 500 1 PHE A 45 0.08 SIDE CHAIN REMARK 500 2 TYR A 21 0.07 SIDE CHAIN REMARK 500 2 TYR A 30 0.17 SIDE CHAIN REMARK 500 2 TYR A 31 0.19 SIDE CHAIN REMARK 500 2 TYR A 36 0.13 SIDE CHAIN REMARK 500 2 TYR A 43 0.13 SIDE CHAIN REMARK 500 3 TYR A 5 0.12 SIDE CHAIN REMARK 500 3 TYR A 36 0.12 SIDE CHAIN REMARK 500 4 TYR A 5 0.12 SIDE CHAIN REMARK 500 4 TYR A 31 0.20 SIDE CHAIN REMARK 500 4 TYR A 36 0.16 SIDE CHAIN REMARK 500 4 TYR A 43 0.10 SIDE CHAIN REMARK 500 5 TYR A 5 0.19 SIDE CHAIN REMARK 500 5 TYR A 31 0.21 SIDE CHAIN REMARK 500 5 TYR A 36 0.08 SIDE CHAIN REMARK 500 5 TYR A 63 0.23 SIDE CHAIN REMARK 500 6 TYR A 5 0.07 SIDE CHAIN REMARK 500 6 TYR A 30 0.13 SIDE CHAIN REMARK 500 6 TYR A 31 0.20 SIDE CHAIN REMARK 500 6 TYR A 36 0.15 SIDE CHAIN REMARK 500 6 TYR A 43 0.11 SIDE CHAIN REMARK 500 7 TYR A 5 0.07 SIDE CHAIN REMARK 500 7 TYR A 21 0.07 SIDE CHAIN REMARK 500 7 TYR A 36 0.09 SIDE CHAIN REMARK 500 8 TYR A 5 0.11 SIDE CHAIN REMARK 500 8 TYR A 30 0.10 SIDE CHAIN REMARK 500 8 TYR A 31 0.17 SIDE CHAIN REMARK 500 8 TYR A 36 0.07 SIDE CHAIN REMARK 500 8 TYR A 43 0.08 SIDE CHAIN REMARK 500 8 PHE A 45 0.09 SIDE CHAIN REMARK 500 8 TYR A 63 0.06 SIDE CHAIN REMARK 500 9 TYR A 5 0.26 SIDE CHAIN REMARK 500 9 TYR A 30 0.14 SIDE CHAIN REMARK 500 9 TYR A 31 0.18 SIDE CHAIN REMARK 500 9 TYR A 36 0.12 SIDE CHAIN REMARK 500 9 TYR A 43 0.11 SIDE CHAIN REMARK 500 9 TYR A 63 0.16 SIDE CHAIN REMARK 500 10 TYR A 21 0.08 SIDE CHAIN REMARK 500 10 TYR A 31 0.18 SIDE CHAIN REMARK 500 10 TYR A 36 0.08 SIDE CHAIN REMARK 500 10 TYR A 43 0.15 SIDE CHAIN REMARK 500 11 TYR A 5 0.12 SIDE CHAIN REMARK 500 11 TYR A 30 0.12 SIDE CHAIN REMARK 500 11 TYR A 31 0.21 SIDE CHAIN REMARK 500 11 TYR A 36 0.07 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 88 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BCG RELATED DB: PDB REMARK 900 AN EXCITATORY SCORPION TOXIN WITH A DISTINCTIVE FEATURE: AN REMARK 900 ADDITIONAL ALPHA HELIX AT THE C TERMINUS AND ITS IMPLICATIONS FOR REMARK 900 INTERACTION WITH INSECT SODIUM CHANNELS REMARK 900 RELATED ID: 1NPI RELATED DB: PDB REMARK 900 TITYUS SERRULATUS NEUROTOXIN (TS1) AT ATOMIC RESOLUTION REMARK 900 RELATED ID: 1PTX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TOXIN II FROM THE SCORPION ANDROCTONUS REMARK 900 AUSTRALIS HECTOR REFINED AT 1.3 A RESOLUTION DBREF 1WWN A 1 69 UNP O61668 SIX1_MESMA 19 87 SEQRES 1 A 69 LYS LYS ASN GLY TYR ALA VAL ASP SER SER GLY LYS VAL SEQRES 2 A 69 SER GLU CYS LEU LEU ASN ASN TYR CYS ASN ASN ILE CYS SEQRES 3 A 69 THR LYS VAL TYR TYR ALA THR SER GLY TYR CYS CYS LEU SEQRES 4 A 69 LEU SER CYS TYR CYS PHE GLY LEU ASP ASP ASP LYS ALA SEQRES 5 A 69 VAL LEU LYS ILE LYS ASP ALA THR LYS SER TYR CYS ASP SEQRES 6 A 69 VAL GLN ILE ILE HELIX 1 1 LEU A 18 VAL A 29 1 12 HELIX 2 2 LYS A 57 CYS A 64 1 8 SHEET 1 A 3 ASN A 3 TYR A 5 0 SHEET 2 A 3 SER A 41 PHE A 45 -1 O CYS A 44 N GLY A 4 SHEET 3 A 3 SER A 34 CYS A 38 -1 N TYR A 36 O TYR A 43 SSBOND 1 CYS A 16 CYS A 37 1555 1555 2.09 SSBOND 2 CYS A 22 CYS A 42 1555 1555 2.07 SSBOND 3 CYS A 26 CYS A 44 1555 1555 2.05 SSBOND 4 CYS A 38 CYS A 64 1555 1555 2.08 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