10 20 30 40 50 60 70 80 1NBL - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TOXIN 03-DEC-02 1NBL
TITLE NMR STRUCTURE OF HELLETHIONIN D
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HELLETHIONIN D; COMPND 3 CHAIN: A
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELLEBORUS PURPURASCENS; SOURCE 3 ORGANISM_TAXID: 171899
KEYWDS GAMMA THIONINS HELLEBORUS, TOXIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR A.G.MILBRADT,F.KEREK,L.MORODER,C.RENNER
REVDAT 2 24-FEB-09 1NBL 1 VERSN REVDAT 1 11-MAR-03 1NBL 0
JRNL AUTH A.G.MILBRADT,F.KEREK,L.MORODER,C.RENNER JRNL TITL STRUCTURAL CHARACTERIZATION OF HELLETHIONINS FROM JRNL TITL 2 HELLEBORUS PURPURASCENS JRNL REF BIOCHEMISTRY V. 42 2404 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12600207 JRNL DOI 10.1021/BI020628H
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 2.98 REMARK 3 AUTHORS : ACCELRYS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE IS BASED ON 577 NOE- REMARK 3 DERIVED CONSTRAINTS AND 17 DISTANCE CONSTRAINTS FROM HYDROGEN REMARK 3 BONDS
REMARK 4 REMARK 4 1NBL COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-02. REMARK 100 THE RCSB ID CODE IS RCSB017744.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293; 283; 303 REMARK 210 PH : 2.5; 2.5; 2.5 REMARK 210 IONIC STRENGTH : PH 2.5; PH 2.5; PH 2.5 REMARK 210 PRESSURE : 1 BAR; 1 BAR; 1 BAR REMARK 210 SAMPLE CONTENTS : 4MM HELLETHIONIN D; WATER PH REMARK 210 2.5; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ, 500 MHZ, 400 MHZ, REMARK 210 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX, DRX, AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.0, SPARKY 3.98, REMARK 210 DGII, DISCOVER 2.98 REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 : NULL 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: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 SER A 46 C SER A 46 OXT 0.135 REMARK 500 2 SER A 46 C SER A 46 OXT 0.133 REMARK 500 3 SER A 46 C SER A 46 OXT 0.135 REMARK 500 4 SER A 46 C SER A 46 OXT 0.134 REMARK 500 5 SER A 46 C SER A 46 OXT 0.134 REMARK 500 6 SER A 46 C SER A 46 OXT 0.136 REMARK 500 7 SER A 46 C SER A 46 OXT 0.134 REMARK 500 8 SER A 46 C SER A 46 OXT 0.134 REMARK 500 9 SER A 46 C SER A 46 OXT 0.135 REMARK 500 10 SER A 46 C SER A 46 OXT 0.134 REMARK 500 11 SER A 46 C SER A 46 OXT 0.134 REMARK 500 12 SER A 46 C SER A 46 OXT 0.135 REMARK 500 13 SER A 46 C SER A 46 OXT 0.136 REMARK 500 14 SER A 46 C SER A 46 OXT 0.135 REMARK 500 15 SER A 46 C SER A 46 OXT 0.137 REMARK 500 16 SER A 46 C SER A 46 OXT 0.135 REMARK 500 17 SER A 46 C SER A 46 OXT 0.135 REMARK 500 18 SER A 46 C SER A 46 OXT 0.135 REMARK 500 19 SER A 46 C SER A 46 OXT 0.137 REMARK 500 20 SER A 46 C SER A 46 OXT 0.134 REMARK 500 REMARK 500 REMARK: NULL 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 6 VAL A 35 CA - CB - CG2 ANGL. DEV. = 9.1 DEGREES REMARK 500 13 CYS A 32 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 15 CYS A 32 CA - CB - SG ANGL. DEV. = 7.1 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 THR A 37 -177.24 -65.25 REMARK 500 2 THR A 36 55.15 -111.43 REMARK 500 2 THR A 37 -174.37 -63.35 REMARK 500 3 ILE A 33 -156.19 -101.61 REMARK 500 3 THR A 36 50.72 -109.11 REMARK 500 5 THR A 19 -178.93 -65.10 REMARK 500 5 SER A 22 -140.00 -62.04 REMARK 500 5 ILE A 33 -162.39 -123.21 REMARK 500 7 ILE A 28 -61.43 -92.00 REMARK 500 8 SER A 22 170.29 -59.64 REMARK 500 8 ILE A 28 -60.71 -94.24 REMARK 500 8 THR A 36 50.53 -109.92 REMARK 500 9 SER A 22 -134.69 -68.11 REMARK 500 9 ILE A 33 -163.91 -127.17 REMARK 500 9 THR A 37 -179.97 -66.53 REMARK 500 10 THR A 19 0.70 -64.03 REMARK 500 10 ILE A 33 -159.51 -118.44 REMARK 500 10 THR A 37 -179.53 -67.21 REMARK 500 11 ILE A 28 -61.01 -91.70 REMARK 500 11 ILE A 33 -160.46 -118.27 REMARK 500 12 THR A 37 -178.67 -65.97 REMARK 500 13 THR A 19 1.28 -63.16 REMARK 500 13 THR A 36 50.10 -117.70 REMARK 500 13 THR A 37 -179.16 -65.89 REMARK 500 14 THR A 36 50.14 -111.80 REMARK 500 15 THR A 19 0.51 -63.50 REMARK 500 15 THR A 37 -177.73 -66.67 REMARK 500 16 SER A 22 171.43 -58.86 REMARK 500 16 THR A 36 50.81 -108.55 REMARK 500 17 THR A 19 2.38 -63.99 REMARK 500 17 ILE A 28 -61.98 -91.59 REMARK 500 17 ILE A 33 -159.08 -114.73 REMARK 500 18 THR A 39 -153.03 -125.53 REMARK 500 19 ILE A 33 -164.10 -128.64 REMARK 500 19 THR A 37 -176.23 -66.06 REMARK 500 20 THR A 19 -179.04 -64.08 REMARK 500 20 ILE A 33 -158.15 -113.80 REMARK 500 20 THR A 37 152.96 59.06 REMARK 500 20 THR A 39 -179.60 -175.39 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 VAL A 35 THR A 36 1 148.22 REMARK 500 VAL A 35 THR A 36 2 145.27 REMARK 500 THR A 37 THR A 38 2 140.95 REMARK 500 VAL A 35 THR A 36 3 145.65 REMARK 500 VAL A 35 THR A 36 4 145.43 REMARK 500 VAL A 35 THR A 36 5 145.82 REMARK 500 VAL A 35 THR A 36 6 147.24 REMARK 500 VAL A 35 THR A 36 7 146.31 REMARK 500 VAL A 35 THR A 36 8 146.12 REMARK 500 VAL A 35 THR A 36 9 147.10 REMARK 500 THR A 37 THR A 38 9 148.69 REMARK 500 VAL A 35 THR A 36 10 148.40 REMARK 500 THR A 37 THR A 38 10 145.51 REMARK 500 VAL A 35 THR A 36 11 145.79 REMARK 500 VAL A 35 THR A 36 12 148.76 REMARK 500 THR A 37 THR A 38 12 144.26 REMARK 500 VAL A 35 THR A 36 13 147.35 REMARK 500 THR A 37 THR A 38 13 146.85 REMARK 500 VAL A 35 THR A 36 14 146.76 REMARK 500 VAL A 35 THR A 36 15 147.25 REMARK 500 VAL A 35 THR A 36 16 145.41 REMARK 500 VAL A 35 THR A 36 17 145.74 REMARK 500 VAL A 35 THR A 36 18 147.00 REMARK 500 VAL A 35 THR A 36 19 147.75 REMARK 500 THR A 37 THR A 38 19 148.01 REMARK 500 THR A 37 THR A 38 20 132.04 REMARK 500 REMARK 500 REMARK: NULL
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THERE WAS NO SUITABLE SEQUENCE DATABASE REFERENCE REMARK 999 AT THE TIME OF PROCESSING.
DBREF 1NBL A 1 46 PDB 1NBL 1NBL 1 46
SEQRES 1 A 46 LYS SER CYS CYS ARG ASN THR LEU ALA ARG ASN CYS TYR SEQRES 2 A 46 ASN ALA CYS ARG PHE THR GLY GLY SER GLN PRO THR CYS SEQRES 3 A 46 GLY ILE LEU CYS ASP CYS ILE HIS VAL THR THR THR THR SEQRES 4 A 46 CYS PRO SER SER HIS PRO SER
HELIX 1 1 ASN A 6 THR A 19 1 14 HELIX 2 2 SER A 22 CYS A 30 1 9
SSBOND 1 CYS A 3 CYS A 40 1555 1555 2.05 SSBOND 2 CYS A 4 CYS A 32 1555 1555 2.05 SSBOND 3 CYS A 12 CYS A 30 1555 1555 2.05 SSBOND 4 CYS A 16 CYS A 26 1555 1555 2.04
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