HEADER METAL BINDING PROTEIN 27-MAR-00 1C7V TITLE NMR SOLUTION STRUCTURE OF THE CALCIUM-BOUND C-TERMINAL DOMAIN (W81- TITLE 2 S161) OF CALCIUM VECTOR PROTEIN FROM AMPHIOXUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCIUM VECTOR PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN (RESIDUES 81-161); COMPND 5 SYNONYM: CAVP; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRANCHIOSTOMA LANCEOLATUM; SOURCE 3 ORGANISM_COMMON: AMPHIOXUS; SOURCE 4 ORGANISM_TAXID: 7740; SOURCE 5 TISSUE: MUSCLE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS EF-HAND FAMILY, CALCIUM BINDING PROTEIN, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR I.THERET,S.BALADI,J.A.COX,H.SAKAMOTO,C.T.CRAESCU REVDAT 5 27-DEC-23 1C7V 1 REMARK REVDAT 4 16-FEB-22 1C7V 1 REMARK REVDAT 3 24-FEB-09 1C7V 1 VERSN REVDAT 2 27-SEP-00 1C7V 1 JRNL REVDAT 1 12-APR-00 1C7V 0 JRNL AUTH I.THERET,S.BALADI,J.A.COX,H.SAKAMOTO,C.T.CRAESCU JRNL TITL SEQUENTIAL CALCIUM BINDING TO THE REGULATORY DOMAIN OF JRNL TITL 2 CALCIUM VECTOR PROTEIN REVEALS FUNCTIONAL ASYMMETRY AND A JRNL TITL 3 NOVEL MODE OF STRUCTURAL REARRANGEMENT. JRNL REF BIOCHEMISTRY V. 39 7920 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10891072 JRNL DOI 10.1021/BI000360Z REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 97.0, FELIX 97.0 REMARK 3 AUTHORS : MSI (SAN DIEGO) (FELIX), MSI (SAN DIEGO) (FELIX) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE IS BASED ON 938 NOE REMARK 3 RESTRAINTS, 66 HYDROGEN BOND RESTRAINTS AND 99 DIHEDRAL ANGLE REMARK 3 RESTRAINTS REMARK 4 REMARK 4 1C7V COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-00. REMARK 100 THE DEPOSITION ID IS D_1000001444. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 MM KCL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : UNLABELED; UNIFORMLY 15N LABELED REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D (1H-15N)NOESY-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITY 500 REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : DISTANCE GEOMETRY (DGII) AND REMARK 210 SIMULATED ANNEALING (DISCOVER) REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : AGREEMENT WITH NOE RESTRAINTS, REMARK 210 GEOMETRY QUALITY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING 2D, HOMONUCLEAR AND 3D REMARK 210 HETERONUCLEAR EXPERIMENTS. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 TRP A 81 REMARK 465 VAL A 82 REMARK 465 ARG A 83 REMARK 465 GLN A 84 REMARK 465 ASP A 85 REMARK 465 ASP A 86 REMARK 465 LYS A 155 REMARK 465 ASN A 156 REMARK 465 ALA A 157 REMARK 465 LEU A 158 REMARK 465 LYS A 159 REMARK 465 GLU A 160 REMARK 465 SER A 161 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 OE1 GLU A 129 HZ2 LYS A 132 1.54 REMARK 500 OD1 ASP A 108 HZ3 LYS A 111 1.54 REMARK 500 O LYS A 152 H SER A 154 1.55 REMARK 500 OD1 ASP A 149 HZ3 LYS A 152 1.55 REMARK 500 OE1 GLU A 128 HZ3 LYS A 132 1.58 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 1 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 LEU A 122 CB - CA - C ANGL. DEV. = 13.7 DEGREES REMARK 500 1 ASP A 135 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 1 VAL A 141 CA - CB - CG2 ANGL. DEV. = 9.7 DEGREES REMARK 500 1 MET A 148 CA - CB - CG ANGL. DEV. = 20.7 DEGREES REMARK 500 1 LYS A 153 N - CA - C ANGL. DEV. = 18.2 DEGREES REMARK 500 2 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 2 GLY A 103 N - CA - C ANGL. DEV. = 17.7 DEGREES REMARK 500 2 VAL A 104 CG1 - CB - CG2 ANGL. DEV. = 10.1 DEGREES REMARK 500 2 LEU A 122 CB - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 2 VAL A 127 CA - CB - CG1 ANGL. DEV. = 14.5 DEGREES REMARK 500 2 MET A 148 CA - CB - CG ANGL. DEV. = 19.0 DEGREES REMARK 500 2 LEU A 150 CB - CA - C ANGL. DEV. = 11.4 DEGREES REMARK 500 3 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 3 ARG A 92 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 ASP A 135 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 4 LEU A 122 CB - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 4 LEU A 122 N - CA - CB ANGL. DEV. = -13.7 DEGREES REMARK 500 4 VAL A 141 CA - CB - CG2 ANGL. DEV. = 11.5 DEGREES REMARK 500 4 SER A 154 N - CA - CB ANGL. DEV. = -10.2 DEGREES REMARK 500 5 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 LYS A 95 CB - CA - C ANGL. DEV. = 12.9 DEGREES REMARK 500 5 LEU A 122 CB - CA - C ANGL. DEV. = 13.2 DEGREES REMARK 500 5 VAL A 141 CA - CB - CG2 ANGL. DEV. = 15.5 DEGREES REMARK 500 5 MET A 148 CA - CB - CG ANGL. DEV. = 11.3 DEGREES REMARK 500 6 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 6 ASP A 102 N - CA - CB ANGL. DEV. = 13.5 DEGREES REMARK 500 6 VAL A 127 CA - CB - CG1 ANGL. DEV. = 13.3 DEGREES REMARK 500 6 MET A 148 CA - CB - CG ANGL. DEV. = 13.2 DEGREES REMARK 500 6 LYS A 153 N - CA - C ANGL. DEV. = 16.2 DEGREES REMARK 500 7 ILE A 90 CA - CB - CG1 ANGL. DEV. = 12.9 DEGREES REMARK 500 7 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 7 LEU A 122 CB - CA - C ANGL. DEV. = 13.5 DEGREES REMARK 500 7 LEU A 122 N - CA - CB ANGL. DEV. = -17.5 DEGREES REMARK 500 7 ASP A 135 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 7 VAL A 141 CA - CB - CG2 ANGL. DEV. = 13.6 DEGREES REMARK 500 8 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 8 LEU A 122 CB - CA - C ANGL. DEV. = 18.9 DEGREES REMARK 500 8 ASP A 135 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 9 LEU A 91 CA - CB - CG ANGL. DEV. = 16.8 DEGREES REMARK 500 9 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 9 LYS A 95 CB - CA - C ANGL. DEV. = 12.0 DEGREES REMARK 500 9 ASN A 139 CA - C - O ANGL. DEV. = -12.6 DEGREES REMARK 500 9 ASN A 139 O - C - N ANGL. DEV. = -18.0 DEGREES REMARK 500 9 GLY A 140 N - CA - C ANGL. DEV. = 16.0 DEGREES REMARK 500 10 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 10 ARG A 92 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 10 PHE A 97 CB - CG - CD1 ANGL. DEV. = -4.2 DEGREES REMARK 500 10 ASP A 135 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 10 ASP A 137 CA - C - N ANGL. DEV. = 15.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 115 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 ASN A 100 -61.93 84.90 REMARK 500 1 LYS A 116 -29.76 -32.71 REMARK 500 1 GLU A 119 47.75 -89.73 REMARK 500 1 PRO A 121 99.14 -52.05 REMARK 500 1 ASP A 137 -75.93 -166.02 REMARK 500 1 ASN A 139 -3.21 65.38 REMARK 500 1 ILE A 151 -64.73 -90.40 REMARK 500 1 LYS A 153 -8.04 -12.89 REMARK 500 2 ASP A 98 90.60 -59.33 REMARK 500 2 GLN A 115 35.84 -66.40 REMARK 500 2 LYS A 116 -85.34 31.07 REMARK 500 2 GLU A 119 167.20 54.96 REMARK 500 2 PRO A 121 47.34 20.25 REMARK 500 2 LEU A 122 -71.28 -63.28 REMARK 500 2 ASP A 137 -73.49 175.75 REMARK 500 2 ASN A 139 17.79 55.00 REMARK 500 2 LYS A 153 -70.74 -96.42 REMARK 500 3 GLU A 89 -73.07 -45.45 REMARK 500 3 LYS A 116 35.48 -88.52 REMARK 500 3 GLU A 119 79.10 -66.96 REMARK 500 3 GLU A 120 94.19 -168.03 REMARK 500 4 LYS A 116 -72.39 77.63 REMARK 500 4 GLU A 119 122.14 69.54 REMARK 500 4 LYS A 153 -75.83 -105.52 REMARK 500 5 GLU A 88 -43.54 -20.56 REMARK 500 5 GLU A 89 -71.10 -53.31 REMARK 500 5 GLU A 119 79.59 56.91 REMARK 500 5 GLU A 120 -31.05 -144.44 REMARK 500 5 PRO A 121 94.89 -36.31 REMARK 500 5 LEU A 122 -84.91 -76.69 REMARK 500 5 LYS A 153 -71.40 -95.48 REMARK 500 6 ASP A 102 126.04 116.75 REMARK 500 6 LYS A 116 -60.55 -92.20 REMARK 500 6 GLU A 120 66.87 -156.30 REMARK 500 6 PRO A 121 51.93 -102.22 REMARK 500 6 LYS A 153 -18.96 -19.09 REMARK 500 7 ASP A 98 93.47 -65.29 REMARK 500 7 ASP A 106 -169.61 -108.83 REMARK 500 7 LYS A 116 -63.43 74.02 REMARK 500 7 LEU A 122 13.81 -64.34 REMARK 500 7 ASP A 124 -7.07 -0.53 REMARK 500 8 ASP A 98 96.52 -67.26 REMARK 500 8 GLN A 115 47.83 -76.53 REMARK 500 8 LYS A 116 -110.36 25.58 REMARK 500 8 GLU A 119 170.03 52.34 REMARK 500 8 PRO A 121 58.21 9.94 REMARK 500 8 LEU A 122 -72.05 -74.31 REMARK 500 9 GLU A 88 -28.96 -10.62 REMARK 500 9 LYS A 116 58.47 -108.69 REMARK 500 9 GLU A 119 109.62 -51.56 REMARK 500 REMARK 500 THIS ENTRY HAS 122 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 8 PHE A 147 0.09 SIDE CHAIN REMARK 500 12 ARG A 92 0.09 SIDE CHAIN REMARK 500 13 ARG A 92 0.09 SIDE CHAIN REMARK 500 13 PHE A 97 0.08 SIDE CHAIN REMARK 500 14 PHE A 107 0.09 SIDE CHAIN REMARK 500 16 PHE A 110 0.10 SIDE CHAIN REMARK 500 16 PHE A 147 0.13 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 2 ASP A 102 20.76 REMARK 500 7 THR A 123 -10.43 REMARK 500 9 ASN A 139 33.73 REMARK 500 10 ASP A 137 37.10 REMARK 500 11 ASP A 102 22.83 REMARK 500 11 ASP A 137 37.77 REMARK 500 12 ASP A 102 21.66 REMARK 500 14 ASP A 102 23.01 REMARK 500 18 ASP A 135 151.72 REMARK 500 19 GLU A 87 15.21 REMARK 500 19 GLU A 119 -48.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C7W RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE DBREF 1C7V A 81 161 UNP P04573 CAVP_BRALA 81 161 SEQRES 1 A 81 TRP VAL ARG GLN ASP ASP GLU GLU GLU ILE LEU ARG ALA SEQRES 2 A 81 PHE LYS VAL PHE ASP ALA ASN GLY ASP GLY VAL ILE ASP SEQRES 3 A 81 PHE ASP GLU PHE LYS PHE ILE MET GLN LYS VAL GLY GLU SEQRES 4 A 81 GLU PRO LEU THR ASP ALA GLU VAL GLU GLU ALA MET LYS SEQRES 5 A 81 GLU ALA ASP GLU ASP GLY ASN GLY VAL ILE ASP ILE PRO SEQRES 6 A 81 GLU PHE MET ASP LEU ILE LYS LYS SER LYS ASN ALA LEU SEQRES 7 A 81 LYS GLU SER HELIX 1 1 GLU A 87 ASP A 98 1 12 HELIX 2 2 ASN A 100 ASP A 102 5 3 HELIX 3 3 ASP A 106 MET A 114 1 9 HELIX 4 4 THR A 123 ASP A 135 1 13 HELIX 5 5 ASP A 137 VAL A 141 5 5 HELIX 6 6 ILE A 144 LYS A 153 1 10 SHEET 1 A 2 VAL A 104 ILE A 105 0 SHEET 2 A 2 ILE A 142 ASP A 143 -1 O ILE A 142 N ILE A 105 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