HEADER METAL BINDING PROTEIN 12-FEB-08 2K0Q TITLE SOLUTION STRUCTURE OF COPK, A PERIPLASMIC PROTEIN INVOLVED IN COPPER TITLE 2 RESISTANCE IN CUPRIAVIDUS METALLIDURANS CH34 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN COPK; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CUPRIAVIDUS METALLIDURANS; SOURCE 3 STRAIN: CH34; SOURCE 4 GENE: COPK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS COPPER, HEAVY METAL RESISTANCE, OPEN BARREL, PLASMID-ENCODED, METAL KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.BERSCH,A.FAVIER,P.SCHANDA,J.COVES,S.VAN AELST,T.VALLAEYS,R.WATTIEZ, AUTHOR 2 M.MERGEAY REVDAT 5 29-MAY-24 2K0Q 1 REMARK REVDAT 4 16-MAR-22 2K0Q 1 REMARK REVDAT 3 24-FEB-09 2K0Q 1 VERSN REVDAT 2 01-JUL-08 2K0Q 1 JRNL REVDAT 1 27-MAY-08 2K0Q 0 JRNL AUTH B.BERSCH,A.FAVIER,P.SCHANDA,S.VAN AELST,T.VALLAEYS,J.COVES, JRNL AUTH 2 M.MERGEAY,R.WATTIEZ JRNL TITL MOLECULAR STRUCTURE AND METAL-BINDING PROPERTIES OF THE JRNL TITL 2 PERIPLASMIC COPK PROTEIN EXPRESSED IN CUPRIAVIDUS JRNL TITL 3 METALLIDURANS CH34 DURING COPPER CHALLENGE. JRNL REF J.MOL.BIOL. V. 380 386 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18533181 JRNL DOI 10.1016/J.JMB.2008.05.017 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.MONCHY,M.A.BENOTMANE,R.WATTIEZ,S.VAN AELST,V.AUQUIER, REMARK 1 AUTH 2 B.BORREMANS,M.MERGEAY,S.TAGHAVI,D.VAN DER LELIE,T.VALLAEYS REMARK 1 TITL TRANSCRIPTOMIC AND PROTEOMIC ANALYSES OF THE PMOL30-ENCODED REMARK 1 TITL 2 COPPER RESISTANCE IN CUPRIAVIDUS METALLIDURANS STRAIN CH34. REMARK 1 REF MICROBIOLOGY V. 152 1765 2006 REMARK 1 REFN ISSN 0026-2617 REMARK 1 PMID 16735739 REMARK 1 DOI 10.1099/MIC.0.28593-0 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ, CNS REMARK 3 AUTHORS : VARIAN (VNMRJ), BRUNGER, A.T. ET AL. (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ATNOS/CANDID INTERFACED TO CNS, ARIA REMARK 3 1.2 WITH ATNOS/CANDID + DIHEDRAL (TALOS) RESTRAINTS, WATER REMARK 3 REFINEMENT, ARIA 1.2 WITH ATNOS/CANDID, DIHEDRAL (TALOS) AND RDC REMARK 3 RESTRAINTS, WATER REFINEMENT REMARK 4 REMARK 4 2K0Q COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000100529. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.5 MM [U-100% 13C; U-100% 15N] REMARK 210 COPK, 50 MM MES, 90% H2O/10% D2O; REMARK 210 1.5 MM [U-100% 15N] COPK, 50 MM REMARK 210 MES, 90% H2O/10% D2O; 1.5 MM REMARK 210 COPK, 50 MM MES, 5 % C12E5, 5 % REMARK 210 HEXANOL, 90% H2O/10% D2O; 1.5 MM REMARK 210 COPK, 50 MM MES, 100% D2O; 0.5 REMARK 210 MM [U-100% 15N] COPK, 50 MM MES, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 H(CCO)NH; 3D C(CO)NH; 3D HCCH- REMARK 210 TOCSY; 2D 1H-1H NOESY; 3D HNCO- REMARK 210 TYPE; RELAXATION; 3D 15N NOESY- REMARK 210 HSQC; 2D-SOFAST REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; DIRECT DRIVE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW, NMRDRAW, REMARK 210 TALOS, TENSOR, MODULE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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: 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 HH TYR A 10 HE ARG A 61 1.33 REMARK 500 OH TYR A 10 HE ARG A 61 1.57 REMARK 500 H TYR A 10 O VAL A 18 1.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 TYR A 10 CE1 TYR A 10 CZ -0.080 REMARK 500 2 TYR A 10 CZ TYR A 10 CE2 0.086 REMARK 500 3 TYR A 10 CE1 TYR A 10 CZ -0.094 REMARK 500 3 TYR A 10 CZ TYR A 10 CE2 0.103 REMARK 500 4 TYR A 10 CE1 TYR A 10 CZ -0.097 REMARK 500 4 TYR A 10 CZ TYR A 10 CE2 0.099 REMARK 500 6 PHE A 60 CZ PHE A 60 CE2 0.119 REMARK 500 8 TYR A 10 CE1 TYR A 10 CZ -0.089 REMARK 500 8 TYR A 10 CZ TYR A 10 CE2 0.097 REMARK 500 9 TYR A 10 CE1 TYR A 10 CZ -0.124 REMARK 500 9 TYR A 10 CZ TYR A 10 CE2 0.140 REMARK 500 10 TYR A 10 CE1 TYR A 10 CZ -0.096 REMARK 500 10 TYR A 10 CZ TYR A 10 CE2 0.095 REMARK 500 12 PHE A 21 CE1 PHE A 21 CZ 0.118 REMARK 500 15 TYR A 10 CE1 TYR A 10 CZ -0.086 REMARK 500 15 TYR A 10 CZ TYR A 10 CE2 0.089 REMARK 500 15 PHE A 60 CZ PHE A 60 CE2 0.142 REMARK 500 16 TYR A 10 CE1 TYR A 10 CZ -0.079 REMARK 500 16 TYR A 10 CZ TYR A 10 CE2 0.080 REMARK 500 19 PHE A 60 CE1 PHE A 60 CZ 0.154 REMARK 500 19 PHE A 60 CZ PHE A 60 CE2 -0.133 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 ASP A 2 108.56 67.27 REMARK 500 1 LYS A 31 5.75 -52.84 REMARK 500 1 LEU A 62 15.11 36.97 REMARK 500 1 ASP A 63 -51.45 63.66 REMARK 500 1 GLU A 72 88.21 64.20 REMARK 500 2 LYS A 31 2.76 -50.54 REMARK 500 2 LEU A 62 -13.16 53.03 REMARK 500 2 ASP A 63 148.15 67.06 REMARK 500 2 GLU A 64 -45.83 78.90 REMARK 500 2 ARG A 67 -166.46 -102.30 REMARK 500 3 LYS A 31 -19.54 -49.63 REMARK 500 3 ASN A 57 -1.74 72.59 REMARK 500 3 LEU A 62 14.21 37.81 REMARK 500 3 ASP A 63 76.56 36.31 REMARK 500 3 GLU A 64 -41.19 177.77 REMARK 500 4 LYS A 31 5.66 -56.92 REMARK 500 4 LEU A 62 -35.22 62.23 REMARK 500 4 ASP A 63 -39.66 83.75 REMARK 500 4 HIS A 70 -46.32 -171.43 REMARK 500 4 SER A 71 77.57 -102.57 REMARK 500 5 GLN A 13 -31.26 86.88 REMARK 500 5 LEU A 62 -47.99 57.82 REMARK 500 5 ASP A 63 -26.71 80.78 REMARK 500 5 GLU A 72 -60.93 -133.82 REMARK 500 6 LYS A 31 -2.86 -51.63 REMARK 500 6 LEU A 62 -35.53 59.64 REMARK 500 6 ASP A 63 -48.33 79.33 REMARK 500 6 LYS A 68 5.03 -152.85 REMARK 500 6 SER A 71 102.93 -164.83 REMARK 500 7 ASP A 2 121.15 65.09 REMARK 500 7 GLN A 13 -22.65 94.03 REMARK 500 7 LEU A 62 -17.92 57.67 REMARK 500 7 ASP A 63 -25.38 76.07 REMARK 500 7 ARG A 67 -165.01 -101.94 REMARK 500 8 ASN A 57 -9.35 72.37 REMARK 500 8 LEU A 62 -46.76 58.91 REMARK 500 8 ASP A 63 -46.67 77.09 REMARK 500 8 LYS A 68 65.26 -100.05 REMARK 500 9 LYS A 31 1.91 -53.31 REMARK 500 9 ASN A 57 -9.63 71.85 REMARK 500 9 LEU A 62 5.90 38.44 REMARK 500 9 ASP A 63 168.60 54.17 REMARK 500 9 GLU A 64 -40.60 76.05 REMARK 500 9 HIS A 70 -75.80 -87.21 REMARK 500 10 GLN A 13 -36.58 88.72 REMARK 500 10 LEU A 62 -34.28 62.54 REMARK 500 10 ASP A 63 -43.88 81.83 REMARK 500 10 SER A 71 -57.11 -164.78 REMARK 500 11 LYS A 31 1.70 -58.02 REMARK 500 11 LEU A 62 -25.44 60.40 REMARK 500 REMARK 500 THIS ENTRY HAS 101 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 2 TYR A 10 0.06 SIDE CHAIN REMARK 500 3 PHE A 60 0.07 SIDE CHAIN REMARK 500 4 PHE A 60 0.11 SIDE CHAIN REMARK 500 7 PHE A 60 0.09 SIDE CHAIN REMARK 500 9 TYR A 10 0.06 SIDE CHAIN REMARK 500 10 PHE A 60 0.08 SIDE CHAIN REMARK 500 12 PHE A 60 0.06 SIDE CHAIN REMARK 500 14 PHE A 60 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2K0Q A 1 74 UNP Q58AD3 Q58AD3_RALME 21 94 SEQRES 1 A 74 VAL ASP MET SER ASN VAL VAL LYS THR TYR ASP LEU GLN SEQRES 2 A 74 ASP GLY SER LYS VAL HIS VAL PHE LYS ASP GLY LYS MET SEQRES 3 A 74 GLY MET GLU ASN LYS PHE GLY LYS SER MET ASN MET PRO SEQRES 4 A 74 GLU GLY LYS VAL MET GLU THR ARG ASP GLY THR LYS ILE SEQRES 5 A 74 ILE MET LYS GLY ASN GLU ILE PHE ARG LEU ASP GLU ALA SEQRES 6 A 74 LEU ARG LYS GLY HIS SER GLU GLY GLY HELIX 1 1 ASP A 63 LYS A 68 1 6 SHEET 1 A 4 VAL A 6 ASP A 11 0 SHEET 2 A 4 LYS A 17 PHE A 21 -1 O VAL A 18 N TYR A 10 SHEET 3 A 4 MET A 26 GLU A 29 -1 O GLU A 29 N LYS A 17 SHEET 4 A 4 SER A 35 MET A 36 -1 O MET A 36 N MET A 28 SHEET 1 B 3 VAL A 43 GLU A 45 0 SHEET 2 B 3 LYS A 51 LYS A 55 -1 O ILE A 52 N MET A 44 SHEET 3 B 3 GLU A 58 ARG A 61 -1 O PHE A 60 N ILE A 53 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