Header list of 1b45.pdb file
Complete list - 16 20 Bytes
HEADER TOXIN 05-JAN-99 1B45
TITLE ALPHA-CNIA CONOTOXIN FROM CONUS CONSORS, NMR, 43 STRUCTURES
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: ALPHA-CNIA;
COMPND 3 CHAIN: A;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: CONUS CONSORS;
SOURCE 3 ORGANISM_TAXID: 101297
KEYWDS ALPHA-CONOTOXIN, CONUS CONSORS, NICOTINIC ACETYLCHOLINE RECEPTOR,
KEYWDS 2 TOXIN
EXPDTA SOLUTION NMR
NUMMDL 43
AUTHOR P.FAVREAU,I.KRIMM,F.LE GALL,M.J.BOBENRIETH,H.LAMTHANH,F.BOUET,
AUTHOR 2 D.SERVENT,J.MOLGO,A.MENEZ,Y.LETOURNEUX,J.M.LANCELIN
REVDAT 3 16-FEB-22 1B45 1 REMARK LINK
REVDAT 2 24-FEB-09 1B45 1 VERSN
REVDAT 1 09-JUL-99 1B45 0
JRNL AUTH P.FAVREAU,I.KRIMM,F.LE GALL,M.J.BOBENRIETH,H.LAMTHANH,
JRNL AUTH 2 F.BOUET,D.SERVENT,J.MOLGO,A.MENEZ,Y.LETOURNEUX,J.M.LANCELIN
JRNL TITL BIOCHEMICAL CHARACTERIZATION AND NUCLEAR MAGNETIC RESONANCE
JRNL TITL 2 STRUCTURE OF NOVEL ALPHA-CONOTOXINS ISOLATED FROM THE VENOM
JRNL TITL 3 OF CONUS CONSORS.
JRNL REF BIOCHEMISTRY V. 38 6317 1999
JRNL REFN ISSN 0006-2960
JRNL PMID 10320362
JRNL DOI 10.1021/BI982817Z
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : X-PLOR 3.851
REMARK 3 AUTHORS : BRUNGER
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: A TOTAL OF 80 STRUCTURES WERE GENERATED
REMARK 3 STARTING FROM RANDOM COORDINATES BY A HIGH TEMPERATURE SIMULATED
REMARK 3 ANNEALING PROTOCOL AT 1000K (NILGES ET AL., 1988), USING THE
REMARK 3 PARALLHDG.PRO FORCE FIELD OF X-PLOR THAT DO NO TAKE INTO ACCOUNT
REMARK 3 THE ATTRACTIVE TERM OF THE VAN DER WALLS' INTERACTIONS NOR THE
REMARK 3 ELECTROSTATIC INTERACTIONS. THE STRUCTURES THAT AGREED WITH THE
REMARK 3 FORCE FIELD AND EXPERIMENTAL RESTRAINTS (NO NOE VIOLATION GRATER
REMARK 3 THAN 0.2 A) WERE FURTHER REFINED, USING THE FULL CHARMM22 FORCE
REMARK 3 FIELD OF X-PLOR. AN APPROXIMATE SOLVENT ELECTROSTATIC SCREENING
REMARK 3 EFFECT WAS INTRODUCED BY USING A DISTANCE-DEPENDENT DIELECTRIC
REMARK 3 CONSTANT AND BY REDUCING THE ELECTRIC CHARGES OF THE FORMALLY
REMARK 3 CHARGED AMINO ACID SIDE CHAINS (ARG, LYS AND HIS) AND THE N-
REMARK 3 TERMINUS TO 20% OF THEIR NOMINAL CHARGES DEFINED IN THE CHARMM22
REMARK 3 FORCE FIELD. AFTER 1500 STEPS OF CONJUGATE GRADIENT ENERGY
REMARK 3 MINIMIZATION, THE DYNAMIC WAS INITIATED AT 750 K, EQUILIBRATED
REMARK 3 FOR 0.5 PS WITH 1 FS INTEGRATION STEPS, THEN COUPLED TO A HEAT
REMARK 3 BATH AT 750 K AND THE MOLECULE WAS ALLOWED TO EVOLVE FOR 10 PS
REMARK 3 BEFORE BEING COOLED SLOWLY TO 300 K ON A PERIOD OF 5.4 PS AND
REMARK 3 ALLOWED TO EVOLVE AGAIN AT THIS TEMPERATURE FOR 15 PS. AT THE
REMARK 3 END, STRUCTURES WERE ENERGY MINIMIZED BY 1500 STEPS OF THE
REMARK 3 CONJUGATE GRADIENT ALGORITHM. THE FORCE CONSTANT USED FOR THE
REMARK 3 NOE POTENTIAL IN BOTH STEPS WAS 50 KCAL MOL-1 A-2.
REMARK 4
REMARK 4 1B45 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_1000171467.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 278
REMARK 210 PH : 4.1
REMARK 210 IONIC STRENGTH : NULL
REMARK 210 PRESSURE : 1 ATM
REMARK 210 SAMPLE CONTENTS : 90%WATER/ 10%D2O
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : COSY; TOCSY; NOESY
REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ
REMARK 210 SPECTROMETER MODEL : AVANCE DRX500
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : X-PLOR
REMARK 210 METHOD USED : HIGH TEMPERATURE SIMULATED
REMARK 210 ANNEALING
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 80
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 43
REMARK 210 CONFORMERS, SELECTION CRITERIA : POTENTIAL ENERGIES
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: CLOSE CONTACTS
REMARK 500
REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT.
REMARK 500
REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE
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 4 CYS A 3 N - CA - C ANGL. DEV. = -16.5 DEGREES
REMARK 500 8 TYR A 11 N - CA - C ANGL. DEV. = -19.2 DEGREES
REMARK 500 9 TYR A 11 N - CA - C ANGL. DEV. = -21.0 DEGREES
REMARK 500 9 TYR A 12 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES
REMARK 500 9 TYR A 12 CB - CG - CD1 ANGL. DEV. = 4.1 DEGREES
REMARK 500 12 TYR A 11 N - CA - C ANGL. DEV. = -20.7 DEGREES
REMARK 500 13 GLY A 9 N - CA - C ANGL. DEV. = -15.7 DEGREES
REMARK 500 14 GLY A 9 N - CA - C ANGL. DEV. = -15.4 DEGREES
REMARK 500 14 TYR A 11 N - CA - C ANGL. DEV. = -20.0 DEGREES
REMARK 500 19 GLY A 9 N - CA - C ANGL. DEV. = -16.2 DEGREES
REMARK 500 20 GLY A 9 N - CA - C ANGL. DEV. = -16.0 DEGREES
REMARK 500 22 GLY A 9 N - CA - C ANGL. DEV. = -17.3 DEGREES
REMARK 500 22 TYR A 11 N - CA - C ANGL. DEV. = -20.0 DEGREES
REMARK 500 23 GLY A 9 N - CA - C ANGL. DEV. = -17.6 DEGREES
REMARK 500 24 GLY A 9 N - CA - C ANGL. DEV. = -17.4 DEGREES
REMARK 500 28 TYR A 11 N - CA - C ANGL. DEV. = -18.7 DEGREES
REMARK 500 31 CYS A 8 N - CA - C ANGL. DEV. = -16.3 DEGREES
REMARK 500 32 GLY A 9 N - CA - C ANGL. DEV. = -16.7 DEGREES
REMARK 500 32 TYR A 11 N - CA - C ANGL. DEV. = -19.7 DEGREES
REMARK 500 33 GLY A 9 N - CA - C ANGL. DEV. = -15.8 DEGREES
REMARK 500 35 CYS A 8 N - CA - C ANGL. DEV. = -16.5 DEGREES
REMARK 500 36 TYR A 11 N - CA - C ANGL. DEV. = -16.4 DEGREES
REMARK 500 37 TYR A 11 N - CA - C ANGL. DEV. = -19.8 DEGREES
REMARK 500 38 TYR A 11 N - CA - C ANGL. DEV. = -19.8 DEGREES
REMARK 500 40 GLY A 9 N - CA - C ANGL. DEV. = -15.1 DEGREES
REMARK 500 40 TYR A 11 N - CA - C ANGL. DEV. = -20.0 DEGREES
REMARK 500 43 TYR A 11 N - CA - C ANGL. DEV. = -18.2 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 CYS A 4 55.71 -154.59
REMARK 500 2 SER A 13 104.45 -168.03
REMARK 500 3 LYS A 10 37.73 -89.41
REMARK 500 3 SER A 13 -138.74 -145.20
REMARK 500 4 CYS A 4 51.37 -145.92
REMARK 500 5 CYS A 4 73.22 -160.07
REMARK 500 7 CYS A 4 61.42 -159.96
REMARK 500 8 TYR A 12 -179.47 -173.22
REMARK 500 9 ALA A 7 48.07 -86.80
REMARK 500 9 CYS A 8 -85.07 -120.62
REMARK 500 9 LYS A 10 42.43 -102.26
REMARK 500 10 SER A 13 -139.81 -147.27
REMARK 500 12 CYS A 8 -82.51 -126.20
REMARK 500 13 CYS A 4 83.60 -163.48
REMARK 500 13 ALA A 7 70.89 -102.30
REMARK 500 13 CYS A 8 -67.96 -107.45
REMARK 500 13 LYS A 10 35.51 -83.85
REMARK 500 14 CYS A 8 -73.04 -121.88
REMARK 500 15 CYS A 4 81.68 -156.56
REMARK 500 15 TYR A 11 65.43 -112.50
REMARK 500 16 CYS A 8 -67.18 -140.64
REMARK 500 18 CYS A 4 26.59 -140.20
REMARK 500 18 ALA A 7 -54.26 -153.00
REMARK 500 19 CYS A 4 94.86 -165.96
REMARK 500 19 ALA A 7 38.95 -92.41
REMARK 500 19 CYS A 8 -63.49 -96.26
REMARK 500 19 LYS A 10 46.24 -91.99
REMARK 500 20 ALA A 7 53.87 -90.22
REMARK 500 20 CYS A 8 -88.60 -106.77
REMARK 500 21 TYR A 11 16.67 80.90
REMARK 500 22 CYS A 4 92.69 -164.35
REMARK 500 23 CYS A 8 -92.33 -121.94
REMARK 500 24 CYS A 4 93.25 -161.19
REMARK 500 24 CYS A 8 -92.47 -113.62
REMARK 500 24 LYS A 10 47.92 -84.26
REMARK 500 25 CYS A 8 41.36 -97.71
REMARK 500 26 CYS A 4 52.95 -152.71
REMARK 500 26 TYR A 11 55.23 -112.52
REMARK 500 27 CYS A 4 51.38 -145.05
REMARK 500 27 CYS A 8 -65.80 -148.27
REMARK 500 27 SER A 13 -153.18 -152.76
REMARK 500 28 CYS A 4 73.25 -156.42
REMARK 500 29 CYS A 4 42.08 -162.54
REMARK 500 29 LYS A 10 -69.39 79.22
REMARK 500 29 TYR A 12 95.23 -65.92
REMARK 500 31 CYS A 4 68.28 -114.58
REMARK 500 31 PRO A 6 32.97 -73.80
REMARK 500 31 LYS A 10 -123.22 74.12
REMARK 500 32 TYR A 12 -177.21 -175.37
REMARK 500 33 CYS A 3 69.27 -117.00
REMARK 500
REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS.
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 CYS A 3 CYS A 4 6 -147.58
REMARK 500 TYR A 12 SER A 13 18 -147.64
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 4 TYR A 12 0.06 SIDE CHAIN
REMARK 500 8 TYR A 12 0.09 SIDE CHAIN
REMARK 500 13 TYR A 12 0.06 SIDE CHAIN
REMARK 500 14 TYR A 12 0.09 SIDE CHAIN
REMARK 500 17 TYR A 12 0.09 SIDE CHAIN
REMARK 500 21 TYR A 12 0.08 SIDE CHAIN
REMARK 500 23 TYR A 12 0.08 SIDE CHAIN
REMARK 500 31 TYR A 12 0.10 SIDE CHAIN
REMARK 500 32 TYR A 12 0.08 SIDE CHAIN
REMARK 500 36 TYR A 12 0.07 SIDE CHAIN
REMARK 500 37 TYR A 12 0.08 SIDE CHAIN
REMARK 500 38 TYR A 12 0.09 SIDE CHAIN
REMARK 500 41 TYR A 12 0.07 SIDE CHAIN
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 15
DBREF 1B45 A 1 14 UNP P56973 CXA1_CONCN 1 14
SEQRES 1 A 15 GLY ARG CYS CYS HIS PRO ALA CYS GLY LYS TYR TYR SER
SEQRES 2 A 15 CYS NH2
HET NH2 A 15 3
HETNAM NH2 AMINO GROUP
FORMUL 1 NH2 H2 N
HELIX 1 1 PRO A 6 CYS A 8 5 3
SSBOND 1 CYS A 3 CYS A 8 1555 1555 2.02
SSBOND 2 CYS A 4 CYS A 14 1555 1555 2.03
LINK C CYS A 14 N NH2 A 15 1555 1555 1.36
SITE 1 AC1 1 CYS A 14
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 - 16 20 Bytes