PDB Short entry for 1BIG HEADER NEUROTOXIN 16-JUN-98 1BIG TITLE SCORPION TOXIN BMTX1 FROM BUTHUS MARTENSII KARSCH, NMR, 25 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOXIN BMTX1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; SOURCE 3 ORGANISM_COMMON: CHINESE SCORPION; SOURCE 4 ORGANISM_TAXID: 34649 KEYWDS TOXIN, SCORPION, NEUROTOXIN, LARGE CONDUCTANCE POTASSIUM CHANNEL, KEYWDS 2 VOLTAGE GATED POTASSIUM CHANNEL, BUTHUS MARTENSII EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR E.BLANC,R.ROMI-LEBRUN,O.BORNET,T.NAKAJIMA,H.DARBON REVDAT 3 25-DEC-19 1BIG 1 REMARK SEQRES LINK REVDAT 2 24-FEB-09 1BIG 1 VERSN REVDAT 1 13-JAN-99 1BIG 0 JRNL AUTH E.BLANC,R.ROMI-LEBRUN,O.BORNET,T.NAKAJIMA,H.DARBON JRNL TITL SOLUTION STRUCTURE OF TWO NEW TOXINS FROM THE VENOM OF THE JRNL TITL 2 CHINESE SCORPION BUTHUS MARTENSI KARSCH BLOCKERS OF JRNL TITL 3 POTASSIUM CHANNELS. JRNL REF BIOCHEMISTRY V. 37 12412 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9730813 JRNL DOI 10.1021/BI9809371 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.84 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 10,000 ITERATIONS OF THE POWELL REMARK 3 ALGORITHM WITH CHARMM FORCE FIELD REMARK 4 REMARK 4 1BIG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171795. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 3 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : WATER REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; TOCSY; COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX500 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DIANA REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 25 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: 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: 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 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES REMARK 500 1 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.1 DEGREES REMARK 500 1 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.7 DEGREES REMARK 500 1 TYR A 36 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 2 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES REMARK 500 2 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 2 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.5 DEGREES REMARK 500 2 CYS A 33 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 2 TYR A 36 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 3 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES REMARK 500 3 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 3 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.6 DEGREES REMARK 500 3 CYS A 33 CA - CB - SG ANGL. DEV. = 7.7 DEGREES REMARK 500 3 TYR A 36 CB - CG - CD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 3 TYR A 36 CB - CG - CD1 ANGL. DEV. = 5.3 DEGREES REMARK 500 4 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -6.8 DEGREES REMARK 500 4 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 7.9 DEGREES REMARK 500 4 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.5 DEGREES REMARK 500 4 CYS A 33 CA - CB - SG ANGL. DEV. = 8.0 DEGREES REMARK 500 4 CYS A 35 CA - CB - SG ANGL. DEV. = 7.4 DEGREES REMARK 500 4 TYR A 36 CB - CG - CD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 4 TYR A 36 CB - CG - CD1 ANGL. DEV. = 4.7 DEGREES REMARK 500 5 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -6.9 DEGREES REMARK 500 5 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 5 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.4 DEGREES REMARK 500 5 CYS A 33 CA - CB - SG ANGL. DEV. = 6.9 DEGREES REMARK 500 5 TYR A 36 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 6 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -7.1 DEGREES REMARK 500 6 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 6 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.5 DEGREES REMARK 500 6 CYS A 33 CA - CB - SG ANGL. DEV. = 8.6 DEGREES REMARK 500 6 TYR A 36 CB - CG - CD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 6 TYR A 36 CB - CG - CD1 ANGL. DEV. = 5.2 DEGREES REMARK 500 7 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -6.7 DEGREES REMARK 500 7 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES REMARK 500 7 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 8.0 DEGREES REMARK 500 7 TRP A 14 NE1 - CE2 - CD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 7 CYS A 35 CA - CB - SG ANGL. DEV. = 7.7 DEGREES REMARK 500 8 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -6.7 DEGREES REMARK 500 8 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES REMARK 500 8 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.5 DEGREES REMARK 500 8 CYS A 33 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 8 TYR A 36 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 9 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES REMARK 500 9 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 9 TRP A 14 NE1 - CE2 - CZ2 ANGL. DEV. = 7.4 DEGREES REMARK 500 9 CYS A 35 CA - CB - SG ANGL. DEV. = 7.1 DEGREES REMARK 500 9 TYR A 36 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 10 TRP A 14 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 10 TRP A 14 CD1 - NE1 - CE2 ANGL. DEV. = 7.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 125 ANGLE DEVIATIONS. 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 ASN A 30 46.13 31.20 REMARK 500 2 PRO A 24 2.39 -62.16 REMARK 500 2 ASN A 30 53.94 29.34 REMARK 500 3 ASN A 30 50.35 27.84 REMARK 500 4 PRO A 24 14.16 -69.60 REMARK 500 4 ASN A 30 51.96 28.20 REMARK 500 5 ASP A 4 40.59 -104.05 REMARK 500 5 PRO A 24 3.18 -64.49 REMARK 500 5 ASN A 30 54.21 27.99 REMARK 500 6 LYS A 6 102.41 -39.76 REMARK 500 6 ASN A 30 55.36 28.22 REMARK 500 7 ASP A 4 50.40 -116.06 REMARK 500 7 LYS A 11 -29.18 -39.49 REMARK 500 7 ASN A 30 48.64 30.99 REMARK 500 8 ASN A 30 55.63 28.48 REMARK 500 9 PRO A 24 0.65 -69.94 REMARK 500 9 ASN A 30 55.89 25.17 REMARK 500 10 LYS A 11 -31.96 -39.14 REMARK 500 10 ASN A 30 55.08 28.90 REMARK 500 10 TYR A 36 -165.53 -126.75 REMARK 500 11 THR A 8 32.08 -142.96 REMARK 500 11 ASN A 30 51.77 31.79 REMARK 500 12 THR A 8 48.52 -145.72 REMARK 500 12 ASN A 30 55.74 29.67 REMARK 500 13 PHE A 21 -55.69 -122.51 REMARK 500 13 ASN A 30 50.70 29.46 REMARK 500 14 LYS A 11 -31.20 -39.69 REMARK 500 14 PRO A 24 10.96 -66.43 REMARK 500 14 ASN A 30 55.36 30.87 REMARK 500 15 PRO A 24 1.35 -65.13 REMARK 500 15 ASN A 30 48.31 30.34 REMARK 500 15 TYR A 36 -165.00 -127.56 REMARK 500 16 ASN A 30 51.38 29.49 REMARK 500 17 THR A 8 48.64 -148.02 REMARK 500 17 ASN A 30 55.84 24.96 REMARK 500 18 LYS A 6 110.86 -39.36 REMARK 500 18 ASN A 30 53.36 30.82 REMARK 500 19 PRO A 24 0.24 -62.55 REMARK 500 19 ASN A 30 47.06 32.40 REMARK 500 19 TYR A 36 -166.25 -126.36 REMARK 500 20 THR A 8 -38.35 -136.38 REMARK 500 20 ASN A 30 52.64 28.76 REMARK 500 21 THR A 8 -50.11 -123.18 REMARK 500 21 PRO A 24 3.58 -64.63 REMARK 500 21 ASN A 30 52.44 28.73 REMARK 500 22 ASN A 30 54.52 31.13 REMARK 500 22 TYR A 36 -168.99 -115.88 REMARK 500 23 THR A 8 -43.19 -130.25 REMARK 500 23 LYS A 11 -32.79 -39.86 REMARK 500 23 PRO A 24 0.18 -65.70 REMARK 500 REMARK 500 THIS ENTRY HAS 57 RAMACHANDRAN OUTLIERS. 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 ARG A 34 0.25 SIDE CHAIN REMARK 500 2 ARG A 34 0.32 SIDE CHAIN REMARK 500 3 ARG A 34 0.27 SIDE CHAIN REMARK 500 4 ARG A 34 0.24 SIDE CHAIN REMARK 500 5 ARG A 34 0.31 SIDE CHAIN REMARK 500 6 ARG A 34 0.31 SIDE CHAIN REMARK 500 7 ARG A 34 0.31 SIDE CHAIN REMARK 500 8 ARG A 34 0.31 SIDE CHAIN REMARK 500 9 ARG A 34 0.26 SIDE CHAIN REMARK 500 10 ARG A 34 0.29 SIDE CHAIN REMARK 500 11 ARG A 34 0.20 SIDE CHAIN REMARK 500 12 ARG A 34 0.28 SIDE CHAIN REMARK 500 13 ARG A 34 0.23 SIDE CHAIN REMARK 500 14 ARG A 34 0.21 SIDE CHAIN REMARK 500 15 ARG A 34 0.31 SIDE CHAIN REMARK 500 16 ARG A 34 0.32 SIDE CHAIN REMARK 500 17 ARG A 34 0.24 SIDE CHAIN REMARK 500 18 ARG A 34 0.23 SIDE CHAIN REMARK 500 19 ARG A 34 0.31 SIDE CHAIN REMARK 500 20 ARG A 34 0.31 SIDE CHAIN REMARK 500 21 ARG A 34 0.31 SIDE CHAIN REMARK 500 22 ARG A 34 0.31 SIDE CHAIN REMARK 500 23 ARG A 34 0.17 SIDE CHAIN REMARK 500 24 ARG A 34 0.31 SIDE CHAIN REMARK 500 25 ARG A 34 0.31 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1BIG A 2 37 UNP Q9NII6 SCK1_MESMA 22 57 SEQRES 1 A 37 PCA PHE THR ASP VAL LYS CYS THR GLY SER LYS GLN CYS SEQRES 2 A 37 TRP PRO VAL CYS LYS GLN MET PHE GLY LYS PRO ASN GLY SEQRES 3 A 37 LYS CYS MET ASN GLY LYS CYS ARG CYS TYR SER MODRES 1BIG PCA A 1 GLN PYROGLUTAMIC ACID HET PCA A 1 14 HETNAM PCA PYROGLUTAMIC ACID FORMUL 1 PCA C5 H7 N O3 HELIX 1 1 SER A 10 MET A 20 1 11 SHEET 1 A 2 LYS A 27 MET A 29 0 SHEET 2 A 2 LYS A 32 ARG A 34 -1 N ARG A 34 O LYS A 27 SSBOND 1 CYS A 7 CYS A 28 1555 1555 2.02 SSBOND 2 CYS A 13 CYS A 33 1555 1555 2.02 SSBOND 3 CYS A 17 CYS A 35 1555 1555 2.02 LINK C PCA A 1 N PHE A 2 1555 1555 1.31 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