PDB Short entry for 1AXH HEADER NEUROTOXIN 04-NOV-96 1AXH TITLE ATRACOTOXIN-HVI FROM HADRONYCHE VERSUTA (AUSTRALIAN FUNNEL-WEB SPIDER, TITLE 2 NMR, 20 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATRACOTOXIN-HVI; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ACTX-HVI; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HADRONYCHE VERSUTA; SOURCE 3 ORGANISM_TAXID: 6904 KEYWDS NEUROTOXIN, INSECTICIDAL TOXIN, CYSTINE KNOT, FUNNEL-WEB EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.I.FLETCHER,S.I.O'DONOGHUE,M.NILGES,G.F.KING REVDAT 5 03-FEB-21 1AXH 1 JRNL REVDAT 4 29-NOV-17 1AXH 1 REMARK HELIX REVDAT 3 24-FEB-09 1AXH 1 VERSN REVDAT 2 01-APR-03 1AXH 1 JRNL REVDAT 1 12-NOV-97 1AXH 0 JRNL AUTH J.I.FLETCHER,R.SMITH,S.I.O'DONOGHUE,M.NILGES,M.CONNOR, JRNL AUTH 2 M.E.HOWDEN,M.J.CHRISTIE,G.F.KING JRNL TITL THE STRUCTURE OF A NOVEL INSECTICIDAL NEUROTOXIN, JRNL TITL 2 OMEGA-ATRACOTOXIN-HV1, FROM THE VENOM OF AN AUSTRALIAN JRNL TITL 3 FUNNEL WEB SPIDER. JRNL REF NAT.STRUCT.BIOL. V. 4 559 1997 JRNL REFN ISSN 1072-8368 JRNL PMID 9228949 JRNL DOI 10.1038/NSB0797-559 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.K.ATKINSON,M.I.TYLER,E.J.VONARX,M.E.H.HOWDEN REMARK 1 TITL INSECTICIDAL TOXINS DERIVED FROM FUNNEL WEB (ATRAX OR REMARK 1 TITL 2 HADRONYCHE) SPIDERS REMARK 1 REF PATENT 1993 REMARK 1 PUBL GENEVA : WORLD INTELLECTUAL PROPERTY ORGANIZATION REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: INITIAL STRUCTURES (5000) WERE REMARK 3 CALCULATED USING THE DISTANCE GEOMETRY PROGRAMME DIANA, USING A REMARK 3 SINGLE CYCLE OF REDUNDANT DIHEDRAL ANGLE RESTRAINTS [GUNTERT, P. REMARK 3 AND WUTHRICH, K. (1991) J. BIOMOL. NMR 1, 447-456]. THE 100 REMARK 3 STRUCTURES WITH LOWEST RESIDUAL RESTRAINT VIOLATIONS WERE THEN REMARK 3 REFINED USING DYNAMICAL SIMULATED ANNEALING [NILGES, M. CLORE, REMARK 3 G.M. AND GRONENBORN, A.M. (1988) FEBS LETT. 229, 317-324] IN X- REMARK 3 PLOR. STRUCTURES WERE CALCULATED USING 419 NON-REDUNDANT REMARK 3 INTERPROTON DISTANCE RESTRAINTS, 43 DIHEDRAL-ANGLE RESTRAINTS REMARK 3 (27 PHI, 16 CHI1), AND 28 RESTRAINTS DEFINING 14 HYDROGEN BONDS, REMARK 3 GIVING AN AVERAGE OF 13.2 RESTRAINTS/RESIDUE. THE ATOMIC RMS REMARK 3 DIFFERENCES FOR RESIDUES 4 - 37 OF THE FINAL FAMILY OF 20 REMARK 3 CONFORMERS WITH RESPECT TO THE MEAN COORDINATE POSITIONS ARE REMARK 3 0.22 /- 0.06 AND 0.62 +/- 0.08 ANGSTROMS FOR THE BACKBONE AND REMARK 3 HEAVY ATOMS, RESPECTIVELY. THE CORRESPONDING PAIRWISE RMS REMARK 3 DIFFERENCES ARE 0.31 +/- 0.07 AND 0.90 +/- 0.12 ANGSTROMS. REMARK 3 RESIDUES 1 - 3 ARE DISORDERED. THE DEPOSITED STRUCTURES HAVE REMARK 3 BEEN SUPERIMPOSED FOR MINIMUM RMSD OVER THE HEAVY ATOMS OF THE REMARK 3 MEAN COORDINATE STRUCTURE. THE FIRST STRUCTURE IS THAT WITH THE REMARK 3 LOWEST OVERALL ENERGY IN THE SIMPLIFIED ALL-HYDROGEN CHARMM REMARK 3 FORCE FIELD AS IMPLEMENTED IN X-PLOR. REMARK 4 REMARK 4 1AXH 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_1000171375. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 3.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; TOCSY; DQF-COSY; ECOSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DIANA, X-PLOR REMARK 210 METHOD USED : DISTANCE GEOMETRY AND DYNAMICAL REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST RESIDUAL RESTRAINT REMARK 210 VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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: 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 THR A 3 -154.86 -103.75 REMARK 500 3 THR A 3 -48.38 -136.45 REMARK 500 4 THR A 3 -49.40 -156.02 REMARK 500 4 ARG A 35 -169.42 -126.45 REMARK 500 6 THR A 3 -160.04 -128.97 REMARK 500 6 ARG A 35 -169.79 -110.14 REMARK 500 7 THR A 3 -157.12 -95.25 REMARK 500 7 ARG A 35 -169.45 -117.81 REMARK 500 8 ARG A 35 -168.50 -114.04 REMARK 500 9 THR A 3 -86.90 -126.81 REMARK 500 10 THR A 3 -89.46 -124.79 REMARK 500 10 CYS A 4 151.25 -48.30 REMARK 500 11 THR A 3 -48.59 -134.54 REMARK 500 11 ARG A 35 -169.68 -112.36 REMARK 500 12 THR A 3 -152.15 -148.22 REMARK 500 12 CYS A 4 150.83 -47.54 REMARK 500 13 THR A 3 -153.61 -153.11 REMARK 500 13 CYS A 4 150.84 -44.81 REMARK 500 15 THR A 3 -154.05 -141.74 REMARK 500 15 ASN A 27 -169.38 -105.95 REMARK 500 16 THR A 3 -154.87 -130.71 REMARK 500 16 ARG A 35 -169.14 -120.04 REMARK 500 17 THR A 3 -155.42 -133.89 REMARK 500 18 THR A 3 -49.94 -157.45 REMARK 500 19 THR A 3 -153.55 -81.94 REMARK 500 19 CYS A 4 154.07 -46.95 REMARK 500 20 THR A 3 -156.37 -126.59 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 2 ARG A 35 0.23 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1AXH A 1 37 UNP P56207 TOT1A_HADVE 1 37 SEQRES 1 A 37 SER PRO THR CYS ILE PRO SER GLY GLN PRO CYS PRO TYR SEQRES 2 A 37 ASN GLU ASN CYS CYS SER GLN SER CYS THR PHE LYS GLU SEQRES 3 A 37 ASN GLU ASN GLY ASN THR VAL LYS ARG CYS ASP HELIX 1 1 TYR A 13 ASN A 16 5 4 SHEET 1 B1 2 CYS A 22 GLU A 26 0 SHEET 2 B1 2 THR A 32 CYS A 36 -1 SSBOND 1 CYS A 4 CYS A 18 1555 1555 2.02 SSBOND 2 CYS A 11 CYS A 22 1555 1555 2.02 SSBOND 3 CYS A 17 CYS A 36 1555 1555 2.02 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