10 20 30 40 50 60 70 80 1ED0 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TOXIN 26-JAN-00 1ED0
TITLE NMR STRUCTURAL DETERMINATION OF VISCOTOXIN A3 FROM VISCUM TITLE 2 ALBUM L.
COMPND MOL_ID: 1; COMPND 2 MOLECULE: VISCOTOXIN A3; COMPND 3 CHAIN: A
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VISCUM ALBUM; SOURCE 3 ORGANISM_COMMON: EUROPEAN MISTLETOE; SOURCE 4 ORGANISM_TAXID: 3972
KEYWDS THIONIN, CONCENTRIC MOTIF, HELIX-TURN-HELIX, ALPHA-BETA KEYWDS 2 PROTEIN, AMPHIPATHIC HELIX, TOXIN
EXPDTA SOLUTION NMR
NUMMDL 10
AUTHOR S.ROMAGNOLI,R.UGOLINI,F.FOGOLARI,G.SCHALLER,K.URECH, AUTHOR 2 M.GIANNATTASIO,L.RAGONA,H.MOLINARI
REVDAT 3 24-FEB-09 1ED0 1 VERSN REVDAT 2 05-APR-05 1ED0 3 ATOM JRNL REVDAT 1 04-FEB-00 1ED0 0
JRNL AUTH S.ROMAGNOLI,R.UGOLINI,F.FOGOLARI,G.SCHALLER, JRNL AUTH 2 K.URECH,M.GIANNATTASIO,L.RAGONA,H.MOLINARI JRNL TITL NMR STRUCTURAL DETERMINATION OF VISCOTOXIN A3 FROM JRNL TITL 2 VISCUM ALBUM L. JRNL REF BIOCHEM.J. V. 350 569 2000 JRNL REFN ISSN 0264-6021 JRNL PMID 10947973 JRNL DOI 10.1042/0264-6021:3500569
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 98 REMARK 3 AUTHORS : MSI REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1010 DISTANCE RESTRAINTS WERE REMARK 3 CALCULATED REDUCED TO 734 (230 INTRARESIDUE, 172 SEQUENTIAL, REMARK 3 191 MEDIUM RANGE, 141 LONG RANGE) AFTER REMOVAL OF IRRELEVANT REMARK 3 RESTRAINTS. CALCULATION STARTED WITH 200 RANDOMIZED CONFORMERS REMARK 3 AND CONSISTENTLY VIOLATED RESTRAINTS WERE CHECKED AND RELAXED REMARK 3 WHERE NECESSARY. THIS PROCEDURE WAS REPEATED UNTIL NO REMARK 3 CONSISTENT VIOLATIONS WERE FOUND IN HALF OR MORE OF THE REMARK 3 STRUCTURES. 600 NEW CALCULATIONS WERE STARTED AND THE 20 REMARK 3 STRUCTURES WITH LOWEST TARGET FUNCTION WERE ANALYZED. THE REMARK 3 STRUCTURE WITH LOWEST TARGET FUNCTION AND THE STRUCTURE REMARK 3 EXHIBITING THE LARGEST RMSD WITH IT WERE SUBJECTED TO REMARK 3 RESTRAINED MOLECULAR DYNAMICS (20 CYCLES OF 15 PS RESTRAINED REMARK 3 MOLECULAR DYNAMICS FOLLOWED BY MINIMIZATION). ALL EVEN REMARK 3 STRUCTURES FROM THE LAST 10 MINIMIZED STRUCTURES WERE RETAINED REMARK 3 FROM BOTH SETS AND DEPOSITED.
REMARK 4 REMARK 4 1ED0 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-00. REMARK 100 THE RCSB ID CODE IS RCSB010459.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 285 REMARK 210 PH : 3.6 REMARK 210 IONIC STRENGTH : 50MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM VISCOTOXIN A3 1H; 50MM REMARK 210 H3PO4/NAOH AQUEOUS BUFFER; 90% REMARK 210 H2O, 10% D2O; 2MM VISCOTOXIN REMARK 210 A3 1H; 50MM H3PO4/NAOH AQUEOUS REMARK 210 BUFFER; 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, 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 : DYANA 1.4, XWINNMR 1.2, XEASY REMARK 210 1.2 REMARK 210 METHOD USED : RESTRAINED SIMULATED REMARK 210 ANNEALING IN TORSION ANGLE REMARK 210 SPACE, ITERATIVE RESTRAINTS REMARK 210 REFINEMENT, RESTRAINED REMARK 210 MOLECULAR DYNAMICS IN REMARK 210 CARTESIAN COORDINATE SPACE REMARK 210 MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 600 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 8 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 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 19 27.41 -79.71 REMARK 500 2 THR A 19 30.29 -80.81 REMARK 500 3 THR A 19 30.16 -80.61 REMARK 500 5 THR A 19 30.64 -80.13 REMARK 500 6 THR A 19 30.11 -80.69 REMARK 500 8 THR A 19 29.17 -79.87 REMARK 500 10 THR A 19 29.43 -79.97 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 TYR A 13 0.09 SIDE_CHAIN REMARK 500 2 TYR A 44 0.12 SIDE_CHAIN REMARK 500 4 TYR A 44 0.07 SIDE_CHAIN REMARK 500 6 TYR A 44 0.10 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CBN RELATED DB: PDB REMARK 900 CRAMBIN REMARK 900 RELATED ID: 1CNR RELATED DB: PDB REMARK 900 CRAMBIN REMARK 900 RELATED ID: 1CCM RELATED DB: PDB REMARK 900 CRAMBIN REMARK 900 RELATED ID: 1AB1 RELATED DB: PDB REMARK 900 CRAMBIN REMARK 900 RELATED ID: 2PLH RELATED DB: PDB REMARK 900 ALPHA-1-PUROTHIONIN REMARK 900 RELATED ID: 1BHP RELATED DB: PDB REMARK 900 BETA-PUROTHIONIN
DBREF 1ED0 A 1 46 UNP P01538 THN3_VISAL 27 72
SEQRES 1 A 46 LYS SER CYS CYS PRO ASN THR THR GLY ARG ASN ILE TYR SEQRES 2 A 46 ASN ALA CYS ARG LEU THR GLY ALA PRO ARG PRO THR CYS SEQRES 3 A 46 ALA LYS LEU SER GLY CYS LYS ILE ILE SER GLY SER THR SEQRES 4 A 46 CYS PRO SER ASP TYR PRO LYS
HELIX 1 1 THR A 7 LEU A 18 1 12 HELIX 2 2 ARG A 23 SER A 30 1 8
SHEET 1 A 2 SER A 2 CYS A 3 0 SHEET 2 A 2 LYS A 33 ILE A 34 -1 O LYS A 33 N CYS A 3
SSBOND 1 CYS A 3 CYS A 40 1555 1555 2.04 SSBOND 2 CYS A 4 CYS A 32 1555 1555 2.03 SSBOND 3 CYS A 16 CYS A 26 1555 1555 2.03
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