HEADER TOXIN 17-NOV-04 1WT8 TITLE SOLUTION STRUCTURE OF BMP08 FROM THE VENOM OF SCORPION BUTHUS TITLE 2 MARTENSII KARSCH, 20 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUROTOXIN BMK X; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; SOURCE 3 ORGANISM_COMMON: CHINESE SCORPION; SOURCE 4 ORGANISM_TAXID: 34649; SOURCE 5 SECRETION: VENOM KEYWDS ALPHA/BETA SCAFFOLD, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.WU,X.CHEN,X.TONG,Y.LI,N.ZHANG,G.WU REVDAT 4 23-OCT-24 1WT8 1 REMARK REVDAT 3 02-MAR-22 1WT8 1 REMARK REVDAT 2 24-FEB-09 1WT8 1 VERSN REVDAT 1 19-APR-05 1WT8 0 JRNL AUTH X.CHEN,Y.LI,X.TONG,N.ZHANG,G.WU,Q.ZHANG,H.WU JRNL TITL SOLUTION STRUCTURE OF BMP08, A NOVEL SHORT-CHAIN SCORPION JRNL TITL 2 TOXIN FROM BUTHUS MARTENSI KARSCH. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 330 1116 2005 JRNL REFN ISSN 0006-291X JRNL PMID 15823559 JRNL DOI 10.1016/J.BBRC.2005.03.084 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, 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: THE STRUCTURE ARE BASED ON A TOTAL OF REMARK 3 329 CONSTRAINTS, 296 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 10 REMARK 3 DIHEDRAL ANGLE CONSTRAINTS, 23 DISTANCE CONSTRAINTS FROM SEVEN REMARK 3 HYDROGEN BONDS AND THREE DISULFIDE BONDS. REMARK 4 REMARK 4 1WT8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1000023972. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 3.02 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 3.3MM; 3.3MM 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 : DISTANCE GEOMETRY 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 : 2 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 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 CYS A 13 CA - CB - SG ANGL. DEV. = 8.6 DEGREES REMARK 500 6 CYS A 30 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 8 CYS A 27 CB - CA - C ANGL. DEV. = 7.9 DEGREES REMARK 500 8 CYS A 27 CA - CB - SG ANGL. DEV. = 7.7 DEGREES REMARK 500 9 CYS A 27 CA - CB - SG ANGL. DEV. = 10.9 DEGREES REMARK 500 11 CYS A 27 CB - CA - C ANGL. DEV. = 7.8 DEGREES REMARK 500 11 CYS A 27 CA - CB - SG ANGL. DEV. = 8.1 DEGREES REMARK 500 14 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 14 CYS A 30 CA - CB - SG ANGL. DEV. = 8.4 DEGREES REMARK 500 16 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 17 CYS A 27 CA - CB - SG ANGL. DEV. = 9.9 DEGREES REMARK 500 18 CYS A 27 CA - CB - SG ANGL. DEV. = 8.7 DEGREES REMARK 500 20 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 20 CYS A 27 CA - CB - SG ANGL. DEV. = 6.8 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 PRO A 2 40.81 -73.22 REMARK 500 1 CYS A 7 144.09 174.46 REMARK 500 1 LEU A 18 -100.48 -99.53 REMARK 500 1 ASN A 24 69.38 -66.12 REMARK 500 1 CYS A 30 -57.24 -20.25 REMARK 500 2 PRO A 2 65.62 -68.83 REMARK 500 2 TYR A 3 77.21 16.36 REMARK 500 2 VAL A 5 93.88 -69.50 REMARK 500 2 THR A 9 -178.92 -171.14 REMARK 500 2 LEU A 18 -99.67 -116.87 REMARK 500 2 ILE A 20 73.86 49.47 REMARK 500 2 ASN A 24 70.68 -39.79 REMARK 500 3 CYS A 7 142.32 -175.85 REMARK 500 3 LEU A 18 -106.03 -133.01 REMARK 500 3 ILE A 20 97.75 -65.92 REMARK 500 3 ASN A 24 38.13 39.83 REMARK 500 3 CYS A 30 74.17 -68.39 REMARK 500 4 PRO A 2 -175.45 -62.15 REMARK 500 4 LEU A 18 -140.07 -105.60 REMARK 500 4 ILE A 20 103.58 -53.37 REMARK 500 4 ASN A 24 -69.04 -1.38 REMARK 500 4 CYS A 30 75.15 -67.41 REMARK 500 5 LEU A 18 -138.71 -129.54 REMARK 500 5 ILE A 20 77.23 -59.04 REMARK 500 5 ASN A 24 77.88 -58.49 REMARK 500 5 GLN A 28 150.22 -48.09 REMARK 500 5 CYS A 30 -56.66 -29.13 REMARK 500 6 PRO A 2 77.23 -61.67 REMARK 500 6 PRO A 4 24.43 -73.49 REMARK 500 6 CYS A 7 145.08 179.67 REMARK 500 6 LEU A 18 -99.17 -105.70 REMARK 500 6 ASN A 24 71.95 -65.15 REMARK 500 6 CYS A 30 66.98 -67.79 REMARK 500 7 PRO A 2 65.69 -69.77 REMARK 500 7 CYS A 7 166.01 178.67 REMARK 500 7 LEU A 18 -140.26 -89.88 REMARK 500 7 LYS A 23 -167.54 -74.17 REMARK 500 7 ASN A 24 70.03 -39.14 REMARK 500 8 PRO A 4 40.53 -76.23 REMARK 500 8 LEU A 18 -84.40 -8.79 REMARK 500 8 LYS A 23 -159.40 -85.92 REMARK 500 8 ASN A 24 77.96 -60.62 REMARK 500 8 GLN A 28 76.04 -60.41 REMARK 500 9 CYS A 13 13.25 -140.38 REMARK 500 9 LEU A 18 -144.88 -113.81 REMARK 500 9 ILE A 20 78.24 -59.74 REMARK 500 9 ASN A 24 71.10 -49.25 REMARK 500 9 CYS A 27 59.35 -103.57 REMARK 500 10 TYR A 3 74.31 19.17 REMARK 500 10 CYS A 7 142.31 -173.86 REMARK 500 REMARK 500 THIS ENTRY HAS 108 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 SER A 21 CYS A 22 1 -141.72 REMARK 500 VAL A 5 ASN A 6 3 -148.13 REMARK 500 SER A 21 CYS A 22 5 -149.20 REMARK 500 SER A 21 CYS A 22 6 -148.08 REMARK 500 VAL A 5 ASN A 6 14 -144.91 REMARK 500 VAL A 5 ASN A 6 20 -144.86 REMARK 500 GLY A 25 TYR A 26 20 -141.58 REMARK 500 CYS A 27 GLN A 28 20 -148.81 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 3 TYR A 3 0.14 SIDE CHAIN REMARK 500 3 ARG A 11 0.08 SIDE CHAIN REMARK 500 6 TYR A 3 0.11 SIDE CHAIN REMARK 500 7 TYR A 26 0.09 SIDE CHAIN REMARK 500 8 ARG A 11 0.08 SIDE CHAIN REMARK 500 9 ARG A 11 0.16 SIDE CHAIN REMARK 500 11 TYR A 3 0.09 SIDE CHAIN REMARK 500 11 ARG A 11 0.08 SIDE CHAIN REMARK 500 14 TYR A 3 0.07 SIDE CHAIN REMARK 500 15 ARG A 11 0.08 SIDE CHAIN REMARK 500 18 TYR A 3 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ACW RELATED DB: PDB REMARK 900 SOLUTION STRUCTURES OF P01 REMARK 900 RELATED ID: 1DU9 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURES OF BMP02 REMARK 900 RELATED ID: 1PNH RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF P05-NH2 REMARK 900 RELATED ID: 1SCY RELATED DB: PDB REMARK 900 SOLUTION STRUCTURES OF SCYLLATOXIN DBREF 1WT8 A 1 31 UNP Q7Z0H4 SCKI_MESMA 24 54 SEQRES 1 A 31 THR PRO TYR PRO VAL ASN CYS LYS THR ASP ARG ASP CYS SEQRES 2 A 31 VAL MET CYS GLY LEU GLY ILE SER CYS LYS ASN GLY TYR SEQRES 3 A 31 CYS GLN GLY CYS THR HELIX 1 1 THR A 9 GLY A 17 5 9 SHEET 1 A 2 ASN A 6 CYS A 7 0 SHEET 2 A 2 GLY A 25 TYR A 26 -1 O GLY A 25 N CYS A 7 SSBOND 1 CYS A 7 CYS A 22 1555 1555 2.06 SSBOND 2 CYS A 13 CYS A 27 1555 1555 2.08 SSBOND 3 CYS A 16 CYS A 30 1555 1555 2.09 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