HEADER HYDROLASE 30-OCT-07 2RML TITLE SOLUTION STRUCTURE OF THE N-TERMINAL SOLUBLE DOMAINS OF BACILLUS TITLE 2 SUBTILIS COPA COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-TRANSPORTING P-TYPE ATPASE COPA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN COPA; COMPND 5 EC: 3.6.3.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: COPA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET21A KEYWDS COPA, P-TYPE ATPASE, ATP-BINDING, COPPER, COPPER TRANSPORT, KEYWDS 2 HYDROLASE, ION TRANSPORT, MAGNESIUM, MEMBRANE, METAL-BINDING, KEYWDS 3 NUCLEOTIDE-BINDING, PHOSPHORYLATION, TRANSMEMBRANE, TRANSPORT EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR C.SINGLETON,L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,L.TENORI,M.A.KIHLKEN, AUTHOR 2 R.BOETZEL,N.E.LE BRUN REVDAT 4 16-MAR-22 2RML 1 REMARK REVDAT 3 24-FEB-09 2RML 1 VERSN REVDAT 2 22-APR-08 2RML 1 JRNL REVDAT 1 26-FEB-08 2RML 0 JRNL AUTH C.SINGLETON,L.BANCI,S.CIOFI-BAFFONI,L.TENORI,M.A.KIHLKEN, JRNL AUTH 2 R.BOETZEL,N.E.LE BRUN JRNL TITL STRUCTURE AND CU(I)-BINDING PROPERTIES OF THE N-TERMINAL JRNL TITL 2 SOLUBLE DOMAINS OF BACILLUS SUBTILIS COPA JRNL REF BIOCHEM.J. V. 411 571 2008 JRNL REFN ISSN 0264-6021 JRNL PMID 18215122 JRNL DOI 10.1042/BJ20071620 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA, DYANA REMARK 3 AUTHORS : GUNTERT, BRAUN AND WUTHRICH (DYANA), GUNTERT, REMARK 3 BRAUN AND WUTHRICH (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RML COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000150037. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 PROTEIN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC; 2D 1H-15N HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCO; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 500 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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: 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 1 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 2 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 TYR A 137 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 4 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 4 TYR A 137 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 6 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 6 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 8 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 8 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 9 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 9 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 10 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 10 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 11 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 11 TYR A 137 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 12 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 13 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 13 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 13 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 14 ARG A 30 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 14 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 15 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 17 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 17 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 17 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 18 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 18 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 18 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 19 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 19 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 20 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 22 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 23 ARG A 23 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 23 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 24 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 25 ARG A 30 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 25 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.3 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 3 155.28 134.62 REMARK 500 1 ALA A 42 -41.75 69.79 REMARK 500 1 GLU A 44 0.27 90.98 REMARK 500 1 LYS A 66 -9.28 -59.64 REMARK 500 1 LYS A 94 11.71 -68.15 REMARK 500 1 LYS A 98 -17.02 -143.29 REMARK 500 1 ILE A 99 -110.00 34.09 REMARK 500 1 ALA A 110 -33.39 -140.25 REMARK 500 1 LYS A 121 -41.67 -135.73 REMARK 500 1 TYR A 137 -154.21 -84.75 REMARK 500 1 GLN A 145 96.64 -164.92 REMARK 500 1 ASP A 146 -32.25 81.48 REMARK 500 2 SER A 3 112.81 169.81 REMARK 500 2 GLU A 4 93.09 -175.44 REMARK 500 2 GLU A 44 19.38 55.35 REMARK 500 2 VAL A 72 51.49 -104.60 REMARK 500 2 ILE A 80 59.88 -118.95 REMARK 500 2 GLU A 81 90.56 -43.36 REMARK 500 2 THR A 84 32.63 -72.38 REMARK 500 2 LYS A 98 39.28 -159.03 REMARK 500 2 ILE A 99 79.70 -68.05 REMARK 500 2 ALA A 105 74.77 -158.72 REMARK 500 2 ALA A 110 -31.24 -141.14 REMARK 500 2 GLU A 122 45.64 -144.35 REMARK 500 2 TYR A 137 -145.39 -119.46 REMARK 500 2 GLN A 145 -51.89 179.50 REMARK 500 3 SER A 3 -20.48 -169.61 REMARK 500 3 VAL A 12 93.67 171.67 REMARK 500 3 MET A 15 22.80 -72.09 REMARK 500 3 ALA A 18 -53.03 71.35 REMARK 500 3 LYS A 29 15.63 -69.73 REMARK 500 3 ALA A 42 22.46 -76.68 REMARK 500 3 THR A 43 -46.83 -161.05 REMARK 500 3 GLU A 44 62.43 99.58 REMARK 500 3 VAL A 71 36.41 -72.36 REMARK 500 3 VAL A 72 50.03 39.97 REMARK 500 3 ILE A 80 74.20 -102.97 REMARK 500 3 THR A 84 29.07 -141.46 REMARK 500 3 LYS A 98 18.86 -158.23 REMARK 500 3 ILE A 99 -76.92 -28.15 REMARK 500 3 ALA A 105 77.75 -162.92 REMARK 500 3 PRO A 106 96.68 -67.88 REMARK 500 3 LYS A 121 -62.09 -132.42 REMARK 500 3 GLN A 145 -68.68 -171.49 REMARK 500 4 SER A 3 -65.34 -153.38 REMARK 500 4 GLU A 4 111.85 92.34 REMARK 500 4 MET A 15 54.56 -101.03 REMARK 500 4 CYS A 17 139.22 168.62 REMARK 500 4 ALA A 42 28.70 -77.09 REMARK 500 4 THR A 43 -51.96 -157.70 REMARK 500 REMARK 500 THIS ENTRY HAS 331 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 ILE A 99 GLU A 100 2 144.10 REMARK 500 ASN A 108 PHE A 109 3 -145.02 REMARK 500 ASP A 146 SER A 147 3 149.10 REMARK 500 ILE A 99 GLU A 100 7 141.35 REMARK 500 TYR A 69 HIS A 70 10 144.80 REMARK 500 ILE A 99 GLU A 100 10 144.17 REMARK 500 GLY A 33 VAL A 34 11 143.98 REMARK 500 ILE A 99 GLU A 100 14 137.43 REMARK 500 GLU A 100 GLY A 101 15 -148.70 REMARK 500 THR A 43 GLU A 44 16 148.17 REMARK 500 GLY A 68 TYR A 69 16 149.34 REMARK 500 ILE A 99 GLU A 100 16 141.48 REMARK 500 VAL A 12 SER A 13 17 148.44 REMARK 500 ILE A 99 GLU A 100 21 -128.71 REMARK 500 TYR A 137 LYS A 138 21 142.62 REMARK 500 SER A 3 GLU A 4 22 148.20 REMARK 500 SER A 3 GLU A 4 24 148.34 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 2 TYR A 69 0.08 SIDE CHAIN REMARK 500 4 TYR A 69 0.13 SIDE CHAIN REMARK 500 5 ARG A 23 0.09 SIDE CHAIN REMARK 500 7 TYR A 50 0.07 SIDE CHAIN REMARK 500 8 TYR A 69 0.07 SIDE CHAIN REMARK 500 9 TYR A 69 0.07 SIDE CHAIN REMARK 500 14 TYR A 137 0.08 SIDE CHAIN REMARK 500 19 TYR A 50 0.08 SIDE CHAIN REMARK 500 19 TYR A 69 0.07 SIDE CHAIN REMARK 500 19 ARG A 91 0.08 SIDE CHAIN REMARK 500 23 TYR A 118 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OQ3 RELATED DB: PDB DBREF 2RML A 1 147 UNP O32220 COPA_BACSU 1 147 SEQRES 1 A 147 MET LEU SER GLU GLN LYS GLU ILE ALA MET GLN VAL SER SEQRES 2 A 147 GLY MET THR CYS ALA ALA CYS ALA ALA ARG ILE GLU LYS SEQRES 3 A 147 GLY LEU LYS ARG MET PRO GLY VAL THR ASP ALA ASN VAL SEQRES 4 A 147 ASN LEU ALA THR GLU THR SER ASN VAL ILE TYR ASP PRO SEQRES 5 A 147 ALA GLU THR GLY THR ALA ALA ILE GLN GLU LYS ILE GLU SEQRES 6 A 147 LYS LEU GLY TYR HIS VAL VAL THR GLU LYS ALA GLU PHE SEQRES 7 A 147 ASP ILE GLU GLY MET THR CYS ALA ALA CYS ALA ASN ARG SEQRES 8 A 147 ILE GLU LYS ARG LEU ASN LYS ILE GLU GLY VAL ALA ASN SEQRES 9 A 147 ALA PRO VAL ASN PHE ALA LEU GLU THR VAL THR VAL GLU SEQRES 10 A 147 TYR ASN PRO LYS GLU ALA SER VAL SER ASP LEU LYS GLU SEQRES 11 A 147 ALA VAL ASP LYS LEU GLY TYR LYS LEU LYS LEU LYS GLY SEQRES 12 A 147 GLU GLN ASP SER HELIX 1 1 CYS A 17 LYS A 29 1 13 HELIX 2 2 GLY A 56 LYS A 66 1 11 HELIX 3 3 CYS A 85 ASN A 97 1 13 HELIX 4 4 SER A 124 LYS A 134 1 11 SHEET 1 A 4 VAL A 34 VAL A 39 0 SHEET 2 A 4 THR A 45 TYR A 50 -1 O ILE A 49 N ASP A 36 SHEET 3 A 4 LYS A 6 SER A 13 -1 N LYS A 6 O TYR A 50 SHEET 4 A 4 HIS A 70 VAL A 71 -1 O HIS A 70 N SER A 13 SHEET 1 B 4 VAL A 102 ASN A 104 0 SHEET 2 B 4 THR A 113 TYR A 118 -1 O GLU A 117 N ASN A 104 SHEET 3 B 4 GLU A 74 ASP A 79 -1 N ALA A 76 O VAL A 116 SHEET 4 B 4 LYS A 140 LEU A 141 -1 O LYS A 140 N ASP A 79 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