PDB Short entry for 2CCO HEADER TOXIN 13-FEB-98 2CCO TITLE STRUCTURE OF THE CALCIUM CHANNEL BLOCKER OMEGA CONOTOXIN GVIA, NMR, 20 TITLE 2 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: OMEGA-CONOTOXIN GVIA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CONUS GEOGRAPHUS; SOURCE 3 ORGANISM_COMMON: GEOGRAPHY CONE; SOURCE 4 ORGANISM_TAXID: 6491; SOURCE 5 ORGAN: VENOM GLAND KEYWDS CONOTOXIN, CYSTINE KNOT, INHIBITOR CYSTINE KNOT MOTIF, CALCIUM KEYWDS 2 CHANNEL BLOCKER, CONE-SHELL, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.K.PALLAGHY,R.S.NORTON REVDAT 4 09-MAR-22 2CCO 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2CCO 1 VERSN REVDAT 2 01-APR-03 2CCO 1 JRNL REVDAT 1 15-JUL-98 2CCO 0 SPRSDE 15-JUL-98 2CCO 1CCO JRNL AUTH P.K.PALLAGHY,R.S.NORTON JRNL TITL REFINED SOLUTION STRUCTURE OF OMEGA-CONOTOXIN GVIA: JRNL TITL 2 IMPLICATIONS FOR CALCIUM CHANNEL BINDING JRNL REF J.PEPT.RES. V. 53 343 1999 JRNL REFN ISSN 1397-002X JRNL PMID 10231724 JRNL DOI 10.1034/J.1399-3011.1999.00040.X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.0 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESTRAINED SIMULATED ANNEALING OF DIANA REMARK 3 STRUCTURES REMARK 4 REMARK 4 2CCO 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_1000177903. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 299 REMARK 210 PH : 3.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; TOCSY; DQF; AMIDE REMARK 210 EXCHANGE REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX-600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA/X-PLOR REMARK 210 METHOD USED : RESTRAINED SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TOTAL, NOE & DIHEDRAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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: 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 ARG A 17 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 3 SER A 9 N - CA - C ANGL. DEV. = -16.9 DEGREES REMARK 500 3 ARG A 17 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 6 ARG A 17 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 6 ARG A 25 NH1 - CZ - NH2 ANGL. DEV. = 7.0 DEGREES REMARK 500 6 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES REMARK 500 7 SER A 9 N - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 7 ARG A 25 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 8 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 9 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 10 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 11 ARG A 25 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 12 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 13 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 14 ARG A 17 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 14 ARG A 25 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 15 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 16 ARG A 17 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 18 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 19 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 20 ARG A 17 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 20 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -4.0 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 SER A 18 -174.13 157.62 REMARK 500 1 HYP A 21 -4.04 -40.77 REMARK 500 1 THR A 23 -44.58 -144.35 REMARK 500 1 LYS A 24 43.74 84.35 REMARK 500 2 ARG A 17 -59.97 -122.05 REMARK 500 2 SER A 18 -178.35 176.45 REMARK 500 2 HYP A 21 -13.30 -36.33 REMARK 500 2 THR A 23 -38.59 -141.94 REMARK 500 2 LYS A 24 44.08 75.32 REMARK 500 3 THR A 11 52.08 -118.67 REMARK 500 3 ARG A 17 -51.18 -122.56 REMARK 500 3 SER A 18 -175.25 161.44 REMARK 500 3 HYP A 21 2.94 -52.80 REMARK 500 3 THR A 23 -41.19 -141.63 REMARK 500 3 LYS A 24 43.27 85.65 REMARK 500 4 CYS A 8 -161.25 -122.84 REMARK 500 4 CYS A 16 29.22 -75.80 REMARK 500 4 ARG A 17 -37.36 -146.39 REMARK 500 4 SER A 18 -176.26 134.91 REMARK 500 4 HYP A 21 1.51 -45.80 REMARK 500 4 THR A 23 -36.51 -133.48 REMARK 500 4 LYS A 24 37.25 82.55 REMARK 500 5 HYP A 4 145.18 -36.14 REMARK 500 5 CYS A 8 -166.83 -121.65 REMARK 500 5 CYS A 16 28.84 -74.19 REMARK 500 5 ARG A 17 -44.99 -144.31 REMARK 500 5 SER A 18 -174.12 140.67 REMARK 500 5 HYP A 21 2.48 -51.00 REMARK 500 5 THR A 23 -41.48 -137.86 REMARK 500 5 LYS A 24 44.61 86.85 REMARK 500 6 ARG A 17 -53.80 -126.13 REMARK 500 6 SER A 18 179.73 175.22 REMARK 500 6 HYP A 21 -1.09 -48.62 REMARK 500 6 THR A 23 -40.02 -136.60 REMARK 500 6 LYS A 24 43.89 80.06 REMARK 500 7 HYP A 4 139.54 -39.71 REMARK 500 7 TYR A 13 21.47 84.87 REMARK 500 7 ARG A 17 -57.45 -127.31 REMARK 500 7 HYP A 21 -1.85 -44.34 REMARK 500 7 THR A 23 -40.52 -142.05 REMARK 500 7 LYS A 24 37.50 77.44 REMARK 500 8 HYP A 4 150.00 -41.78 REMARK 500 8 ARG A 17 -59.75 -126.58 REMARK 500 8 SER A 18 -179.54 178.56 REMARK 500 8 HYP A 21 -4.94 -37.12 REMARK 500 8 THR A 23 -34.58 -136.13 REMARK 500 8 LYS A 24 43.23 78.61 REMARK 500 9 CYS A 8 -156.26 -128.85 REMARK 500 9 HYP A 10 -37.55 -39.51 REMARK 500 9 ARG A 17 -52.24 -124.89 REMARK 500 REMARK 500 THIS ENTRY HAS 118 RAMACHANDRAN OUTLIERS. 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 1 ARG A 17 0.31 SIDE CHAIN REMARK 500 1 ARG A 25 0.32 SIDE CHAIN REMARK 500 2 ARG A 17 0.31 SIDE CHAIN REMARK 500 2 ARG A 25 0.30 SIDE CHAIN REMARK 500 3 ARG A 17 0.31 SIDE CHAIN REMARK 500 3 ARG A 25 0.23 SIDE CHAIN REMARK 500 4 ARG A 17 0.32 SIDE CHAIN REMARK 500 4 ARG A 25 0.21 SIDE CHAIN REMARK 500 5 ARG A 17 0.18 SIDE CHAIN REMARK 500 5 ARG A 25 0.25 SIDE CHAIN REMARK 500 6 ARG A 17 0.31 SIDE CHAIN REMARK 500 6 ARG A 25 0.32 SIDE CHAIN REMARK 500 7 ARG A 17 0.31 SIDE CHAIN REMARK 500 7 ARG A 25 0.31 SIDE CHAIN REMARK 500 8 ARG A 17 0.31 SIDE CHAIN REMARK 500 8 ARG A 25 0.32 SIDE CHAIN REMARK 500 9 ARG A 17 0.29 SIDE CHAIN REMARK 500 9 ARG A 25 0.12 SIDE CHAIN REMARK 500 10 ARG A 17 0.23 SIDE CHAIN REMARK 500 10 ARG A 25 0.32 SIDE CHAIN REMARK 500 11 ARG A 17 0.29 SIDE CHAIN REMARK 500 11 ARG A 25 0.31 SIDE CHAIN REMARK 500 12 ARG A 17 0.24 SIDE CHAIN REMARK 500 12 ARG A 25 0.29 SIDE CHAIN REMARK 500 13 ARG A 17 0.31 SIDE CHAIN REMARK 500 13 ARG A 25 0.13 SIDE CHAIN REMARK 500 14 ARG A 17 0.10 SIDE CHAIN REMARK 500 14 ARG A 25 0.32 SIDE CHAIN REMARK 500 15 ARG A 17 0.30 SIDE CHAIN REMARK 500 15 ARG A 25 0.30 SIDE CHAIN REMARK 500 16 ARG A 17 0.29 SIDE CHAIN REMARK 500 16 ARG A 25 0.20 SIDE CHAIN REMARK 500 17 ARG A 17 0.25 SIDE CHAIN REMARK 500 17 ARG A 25 0.22 SIDE CHAIN REMARK 500 18 ARG A 17 0.31 SIDE CHAIN REMARK 500 18 ARG A 25 0.30 SIDE CHAIN REMARK 500 19 ARG A 17 0.27 SIDE CHAIN REMARK 500 19 ARG A 25 0.11 SIDE CHAIN REMARK 500 20 ARG A 17 0.29 SIDE CHAIN REMARK 500 20 ARG A 25 0.28 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 28 DBREF 2CCO A 1 27 UNP P01522 CXO6_CONGE 46 72 SEQADV 2CCO HYP A 4 UNP P01522 PRO 49 MODIFIED RESIDUE SEQADV 2CCO HYP A 10 UNP P01522 PRO 55 MODIFIED RESIDUE SEQADV 2CCO HYP A 21 UNP P01522 PRO 66 MODIFIED RESIDUE SEQRES 1 A 28 CYS LYS SER HYP GLY SER SER CYS SER HYP THR SER TYR SEQRES 2 A 28 ASN CYS CYS ARG SER CYS ASN HYP TYR THR LYS ARG CYS SEQRES 3 A 28 TYR NH2 MODRES 2CCO HYP A 4 PRO 4-HYDROXYPROLINE MODRES 2CCO HYP A 10 PRO 4-HYDROXYPROLINE MODRES 2CCO HYP A 21 PRO 4-HYDROXYPROLINE HET HYP A 4 15 HET HYP A 10 15 HET HYP A 21 15 HET NH2 A 28 3 HETNAM HYP 4-HYDROXYPROLINE HETNAM NH2 AMINO GROUP HETSYN HYP HYDROXYPROLINE FORMUL 1 HYP 3(C5 H9 N O3) FORMUL 1 NH2 H2 N SHEET 1 1 3 SER A 6 CYS A 8 0 SHEET 2 1 3 LYS A 24 TYR A 27 -1 O LYS A 24 N CYS A 8 SHEET 3 1 3 SER A 18 ASN A 20 -1 O ASN A 20 N ARG A 25 SSBOND 1 CYS A 1 CYS A 16 1555 1555 2.02 SSBOND 2 CYS A 8 CYS A 19 1555 1555 2.02 SSBOND 3 CYS A 15 CYS A 26 1555 1555 2.03 LINK C SER A 3 N HYP A 4 1555 1555 1.30 LINK C HYP A 4 N GLY A 5 1555 1555 1.30 LINK C SER A 9 N HYP A 10 1555 1555 1.32 LINK C HYP A 10 N THR A 11 1555 1555 1.30 LINK C ASN A 20 N HYP A 21 1555 1555 1.31 LINK C HYP A 21 N TYR A 22 1555 1555 1.32 LINK C TYR A 27 N NH2 A 28 1555 1555 1.30 SITE 1 AC1 3 HYP A 4 CYS A 26 TYR A 27 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