Header list of 1qfb.pdb file
Complete list - 27 20 Bytes
HEADER TOXIN 08-APR-99 1QFB
TITLE THE CYCLIC PEPTIDE CONTRYPHAN-R FROM CONUS RADIATUS
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: PROTEIN (CONTRYPHAN-R);
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: CONTRYPHAN;
COMPND 5 ENGINEERED: YES;
COMPND 6 OTHER_DETAILS: HYDROXYPROLINE AT POSITION 3 (HYP), D-CONFIGURED TRP
COMPND 7 AT POSITION 4 (TPD), C- TERMINALLY AMIDATED
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE
SOURCE 4 OF THIS PEPTIDE IS NATURALLY FOUND IN THE VENOM DUCT OF CONUS
SOURCE 5 RADIATUS (CONE SHELL).
KEYWDS CYCLIC PEPTIDE, DISULFIDE BRIDGE, D-CONFIGURATION, CONUS PEPTIDE,
KEYWDS 2 STIFF-TAIL SYNDROME, VENOM DUCT PEPTIDE, TOXIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR P.K.PALLAGHY,A.P.MELNIKOVA,E.C.JIMENEZ,B.M.OLIVERA,R.S.NORTON
REVDAT 5 27-NOV-19 1QFB 1 JRNL LINK
REVDAT 4 29-NOV-17 1QFB 1 REMARK HELIX
REVDAT 3 24-FEB-09 1QFB 1 VERSN
REVDAT 2 03-NOV-99 1QFB 1 SOURCE JRNL REMARK
REVDAT 1 29-SEP-99 1QFB 0
JRNL AUTH P.K.PALLAGHY,A.P.MELNIKOVA,E.C.JIMENEZ,B.M.OLIVERA,
JRNL AUTH 2 R.S.NORTON
JRNL TITL SOLUTION STRUCTURE OF CONTRYPHAN-R, A NATURALLY OCCURRING
JRNL TITL 2 DISULFIDE-BRIDGED OCTAPEPTIDE CONTAINING D-TRYPTOPHAN:
JRNL TITL 3 COMPARISON WITH PROTEIN LOOPS.
JRNL REF BIOCHEMISTRY V. 38 11553 1999
JRNL REFN ISSN 0006-2960
JRNL PMID 10471307
JRNL DOI 10.1021/BI990685J
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH E.C.JIMENEZ,B.M.OLIVERA,W.R.GRAY,L.J.CRUZ
REMARK 1 TITL CONTRYPHAN IS A D-TRYPTOPHAN-CONTAINING CONUS PEPTIDE.
REMARK 1 REF J.BIOL.CHEM. V. 271 28002 1996
REMARK 1 REFN ISSN 0021-9258
REMARK 1 PMID 8910408
REMARK 1 DOI 10.1074/JBC.271.45.28002
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:
REMARK 3 REFINEMENT WAS PERFORMED IN THE CHARMM19 FORCE FIELD WITH A BOX OF
REMARK 3 EXPLICIT
REMARK 3 WATER MOLECULES TREATED WITH PBC.
REMARK 4
REMARK 4 1QFB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-99.
REMARK 100 THE DEPOSITION ID IS D_1000000814.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 278.0
REMARK 210 PH : 3.0
REMARK 210 IONIC STRENGTH : NULL
REMARK 210 PRESSURE : NULL
REMARK 210 SAMPLE CONTENTS : 90% WATER/10% D2O
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; TCOSY; DQFCOSY
REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ
REMARK 210 SPECTROMETER MODEL : DRX600
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : X-PLOR
REMARK 210 METHOD USED : SIMULATED ANNEALING, ENERGY
REMARK 210 MINIMISATION IN CHARMM19
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 200
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20
REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST NOE & TOTAL ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK:
REMARK 210 THE STRUCTURE WAS DETERMINED USING HOMONUCLEAR 1H NMR SPECTROSCOPY
REMARK 210 ON A
REMARK 210 SYNTHETIC SAMPLE.
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 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES
REMARK 500 1 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.6 DEGREES
REMARK 500 1 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 8.7 DEGREES
REMARK 500 1 DTR A 4 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES
REMARK 500 1 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 7.5 DEGREES
REMARK 500 1 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 7.9 DEGREES
REMARK 500 1 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.7 DEGREES
REMARK 500 2 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -7.4 DEGREES
REMARK 500 2 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.8 DEGREES
REMARK 500 2 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 8.3 DEGREES
REMARK 500 2 DTR A 4 NE1 - CE2 - CD2 ANGL. DEV. = -6.2 DEGREES
REMARK 500 2 TRP A 7 CB - CG - CD1 ANGL. DEV. = -8.3 DEGREES
REMARK 500 2 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 6.5 DEGREES
REMARK 500 2 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 7.9 DEGREES
REMARK 500 2 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.5 DEGREES
REMARK 500 3 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -6.8 DEGREES
REMARK 500 3 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.4 DEGREES
REMARK 500 3 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 6.9 DEGREES
REMARK 500 3 TRP A 7 CB - CG - CD1 ANGL. DEV. = -8.1 DEGREES
REMARK 500 3 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 7.7 DEGREES
REMARK 500 3 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 7.7 DEGREES
REMARK 500 3 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.5 DEGREES
REMARK 500 4 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -6.9 DEGREES
REMARK 500 4 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.1 DEGREES
REMARK 500 4 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 7.0 DEGREES
REMARK 500 4 TRP A 7 CB - CG - CD1 ANGL. DEV. = -8.9 DEGREES
REMARK 500 4 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 7.5 DEGREES
REMARK 500 4 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES
REMARK 500 4 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.5 DEGREES
REMARK 500 5 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -6.9 DEGREES
REMARK 500 5 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 9.0 DEGREES
REMARK 500 5 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 8.2 DEGREES
REMARK 500 5 DTR A 4 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 DEGREES
REMARK 500 5 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES
REMARK 500 5 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 7.0 DEGREES
REMARK 500 5 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.8 DEGREES
REMARK 500 6 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES
REMARK 500 6 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES
REMARK 500 6 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 7.6 DEGREES
REMARK 500 6 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 6.9 DEGREES
REMARK 500 7 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -7.1 DEGREES
REMARK 500 7 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.6 DEGREES
REMARK 500 7 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 7.9 DEGREES
REMARK 500 7 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 8.1 DEGREES
REMARK 500 7 TRP A 7 NE1 - CE2 - CZ2 ANGL. DEV. = 7.7 DEGREES
REMARK 500 7 TRP A 7 NE1 - CE2 - CD2 ANGL. DEV. = -6.8 DEGREES
REMARK 500 8 DTR A 4 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES
REMARK 500 8 DTR A 4 CD1 - NE1 - CE2 ANGL. DEV. = 8.0 DEGREES
REMARK 500 8 DTR A 4 NE1 - CE2 - CZ2 ANGL. DEV. = 6.7 DEGREES
REMARK 500 8 TRP A 7 CD1 - NE1 - CE2 ANGL. DEV. = 7.4 DEGREES
REMARK 500
REMARK 500 THIS ENTRY HAS 117 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 HYP A 3 -159.46 -69.89
REMARK 500 2 HYP A 3 -162.10 -76.51
REMARK 500 4 HYP A 3 -167.55 -67.07
REMARK 500 5 HYP A 3 -158.75 -72.90
REMARK 500 6 HYP A 3 -159.78 -68.92
REMARK 500 7 HYP A 3 -158.67 -76.17
REMARK 500 8 HYP A 3 -165.71 -79.25
REMARK 500 9 HYP A 3 -163.15 -70.38
REMARK 500 10 HYP A 3 -162.99 -75.62
REMARK 500 11 HYP A 3 -163.65 -65.43
REMARK 500 12 HYP A 3 -168.57 -71.99
REMARK 500 13 HYP A 3 -159.46 -72.67
REMARK 500 14 HYP A 3 -174.10 -65.99
REMARK 500 15 HYP A 3 -159.75 -68.83
REMARK 500 17 HYP A 3 -157.80 -78.75
REMARK 500 18 HYP A 3 -161.17 -69.99
REMARK 500 19 HYP A 3 -160.48 -77.19
REMARK 500 20 HYP A 3 -165.89 -71.00
REMARK 500
REMARK 500 REMARK: NULL
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 9
DBREF 1QFB A 1 8 PIR A43097 2144177 1 8
SEQRES 1 A 9 GLY CYS HYP DTR GLU PRO TRP CYS NH2
MODRES 1QFB HYP A 3 PRO 4-HYDROXYPROLINE
MODRES 1QFB DTR A 4 TRP D-TRYPTOPHAN
HET HYP A 3 15
HET DTR A 4 24
HET NH2 A 9 3
HETNAM HYP 4-HYDROXYPROLINE
HETNAM DTR D-TRYPTOPHAN
HETNAM NH2 AMINO GROUP
HETSYN HYP HYDROXYPROLINE
FORMUL 1 HYP C5 H9 N O3
FORMUL 1 DTR C11 H12 N2 O2
FORMUL 1 NH2 H2 N
SSBOND 1 CYS A 2 CYS A 8 1555 1555 2.02
LINK C CYS A 2 N HYP A 3 1555 1555 1.31
LINK C HYP A 3 N DTR A 4 1555 1555 1.30
LINK C DTR A 4 N GLU A 5 1555 1555 1.30
LINK C CYS A 8 N NH2 A 9 1555 1555 1.30
CISPEP 1 CYS A 2 HYP A 3 1 -10.36
CISPEP 2 CYS A 2 HYP A 3 2 -1.26
CISPEP 3 CYS A 2 HYP A 3 3 -9.20
CISPEP 4 CYS A 2 HYP A 3 4 -7.12
CISPEP 5 CYS A 2 HYP A 3 5 -8.97
CISPEP 6 CYS A 2 HYP A 3 6 -9.51
CISPEP 7 CYS A 2 HYP A 3 7 -1.09
CISPEP 8 CYS A 2 HYP A 3 8 10.09
CISPEP 9 CYS A 2 HYP A 3 9 -4.90
CISPEP 10 CYS A 2 HYP A 3 10 -1.27
CISPEP 11 CYS A 2 HYP A 3 11 -11.93
CISPEP 12 CYS A 2 HYP A 3 12 -4.99
CISPEP 13 CYS A 2 HYP A 3 13 -6.63
CISPEP 14 CYS A 2 HYP A 3 14 -10.04
CISPEP 15 CYS A 2 HYP A 3 15 -10.11
CISPEP 16 CYS A 2 HYP A 3 16 10.70
CISPEP 17 CYS A 2 HYP A 3 17 1.36
CISPEP 18 CYS A 2 HYP A 3 18 -10.77
CISPEP 19 CYS A 2 HYP A 3 19 3.31
CISPEP 20 CYS A 2 HYP A 3 20 -1.54
SITE 1 AC1 2 TRP A 7 CYS A 8
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
Complete list - 27 20 Bytes