HEADER METAL BINDING PROTEIN 09-JUN-15 5A4G TITLE NMR STRUCTURE OF A 180 RESIDUE CONSTRUCT ENCOMPASSING THE N-TERMINAL TITLE 2 METAL-BINDING SITE AND THE MEMBRANE PROXIMAL DOMAIN OF SILB FROM TITLE 3 CUPRIAVIDUS METALLIDURANS CH34 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SILB, SILVER EFFLUX PROTEIN, MFP COMPONENT OF THE THREE COMPND 3 COMPONENTS PROTON ANTIPORTER METAL EFFLUX SYSTEM; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 36-123,344-426; COMPND 6 SYNONYM: AG_SILBNM2; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: THE CONSTRUCT IS NUMBERED 1-180,1 BEING THE N-TERMINAL COMPND 9 METHIONINE. THE TWO PARTS OF THE MEMBRANE PROXIMAL DOMAIN ARE LINKED COMPND 10 BY GS LOOP (RESIDUES 90 AND 91, CONSTRUCT NUMBERING) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CUPRIAVIDUS METALLIDURANS; SOURCE 3 ORGANISM_TAXID: 266264; SOURCE 4 STRAIN: CH34; SOURCE 5 ATCC: 43123; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS METAL BINDING PROTEIN, MEMBRANE FUSION PROTEIN, METAL SITE, SILVER, KEYWDS 2 RESISTANCE NODULATION CELL DIVISION, RND EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.BERSCH,P.URBINA FERNANDEZ,G.VANDENBUSSCHE REVDAT 4 14-JUN-23 5A4G 1 REMARK REVDAT 3 23-OCT-19 5A4G 1 REMARK ATOM REVDAT 2 08-JUN-16 5A4G 1 JRNL REVDAT 1 18-MAY-16 5A4G 0 JRNL AUTH P.URBINA,B.BERSCH,F.DE ANGELIS,K.DERFOUFI,M.PREVOST, JRNL AUTH 2 E.GOORMAGHTIGH,G.VANDENBUSSCHE JRNL TITL STRUCTURAL AND FUNCTIONAL INVESTIGATION OF THE JRNL TITL 2 AG+/CU+-BINDING DOMAINS OF THE PERIPLASMIC ADAPTOR PROTEIN JRNL TITL 3 SILB FROM CUPRIAVIDUS METALLIDURANS CH34. JRNL REF BIOCHEMISTRY V. 55 2883 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 27145046 JRNL DOI 10.1021/ACS.BIOCHEM.6B00022 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,READ, RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER REFINEMENT REMARK 4 REMARK 4 5A4G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1290062723. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0; 298.0; 298.0 REMARK 210 PH : 6.3; 6.3; 6.3 REMARK 210 IONIC STRENGTH : 0.0; 0.0; 0.0 REMARK 210 PRESSURE : 1.0 ATM; 1.0 ATM; 1.0 ATM REMARK 210 SAMPLE CONTENTS : 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 13C EDITED NOESY; CNOESY- ATNOS; REMARK 210 AROMNOESY-ATNOS (CENTERED ON REMARK 210 AROMATIC CARBONS); EXPT_13; REMARK 210 NNOESY_ATNOS REMARK 210 SPECTROMETER FIELD STRENGTH : 850 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.1, NMRDRAW ANY, NMRPIPE REMARK 210 ANY, CCPNMR ANALYSIS 2.3, CCPNMR REMARK 210 ANALYSIS 2.4, NMRVIEW ANY, CYANA REMARK 210 ANY REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TOTAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: STRUCTURES CREATED BY ARIA2, WATER REFINEMENT. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 OE2 GLU A 20 HG SER A 157 1.57 REMARK 500 H VAL A 84 O GLN A 145 1.57 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 10 TYR A 29 CE1 TYR A 29 CZ -0.109 REMARK 500 10 TYR A 29 CZ TYR A 29 CE2 0.092 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 ALA A 4 42.59 -82.66 REMARK 500 1 HIS A 10 -167.64 -100.54 REMARK 500 1 ALA A 19 86.13 50.23 REMARK 500 1 TYR A 29 -177.49 -179.67 REMARK 500 1 PRO A 43 169.69 -48.19 REMARK 500 1 MET A 49 -161.06 -124.67 REMARK 500 1 TYR A 57 -76.92 11.97 REMARK 500 1 GLU A 59 79.30 68.99 REMARK 500 1 GLU A 60 68.26 81.26 REMARK 500 1 ASN A 61 -76.92 -164.11 REMARK 500 1 ALA A 62 -86.10 42.58 REMARK 500 1 ALA A 65 57.96 70.59 REMARK 500 1 ARG A 68 -155.49 -70.78 REMARK 500 1 ASP A 70 32.52 -70.41 REMARK 500 1 THR A 74 40.13 -76.86 REMARK 500 1 ASN A 76 22.37 -71.41 REMARK 500 1 LEU A 77 -70.69 65.95 REMARK 500 1 THR A 164 -76.64 -102.17 REMARK 500 1 ARG A 167 -121.30 -131.26 REMARK 500 1 MET A 168 153.14 66.99 REMARK 500 1 GLU A 170 -26.12 74.55 REMARK 500 1 LEU A 175 70.14 -160.02 REMARK 500 2 HIS A 10 73.55 59.46 REMARK 500 2 PRO A 15 57.37 -63.20 REMARK 500 2 ALA A 17 68.82 -100.73 REMARK 500 2 ALA A 19 -75.70 -88.01 REMARK 500 2 LEU A 21 -10.32 70.81 REMARK 500 2 THR A 23 118.11 -164.86 REMARK 500 2 TYR A 29 179.03 179.99 REMARK 500 2 PRO A 43 169.15 -49.37 REMARK 500 2 MET A 49 -107.77 -134.64 REMARK 500 2 ASP A 50 65.95 -165.19 REMARK 500 2 TYR A 57 -89.79 16.77 REMARK 500 2 GLU A 59 85.54 68.48 REMARK 500 2 GLU A 60 60.32 74.36 REMARK 500 2 ASN A 61 -52.16 -135.45 REMARK 500 2 ALA A 62 -74.83 -48.45 REMARK 500 2 ALA A 65 -37.01 -162.84 REMARK 500 2 ALA A 66 -80.50 -90.10 REMARK 500 2 ASP A 70 40.36 -76.23 REMARK 500 2 ALA A 114 88.52 -67.12 REMARK 500 2 SER A 150 -72.57 65.07 REMARK 500 2 GLN A 152 79.94 68.17 REMARK 500 2 ILE A 155 39.85 -83.11 REMARK 500 2 ASP A 156 -99.67 -86.00 REMARK 500 2 VAL A 165 -56.26 72.87 REMARK 500 2 MET A 168 39.17 -158.65 REMARK 500 2 GLN A 169 -74.92 -74.02 REMARK 500 2 LEU A 175 -148.37 -93.39 REMARK 500 2 GLU A 176 -141.00 59.06 REMARK 500 REMARK 500 THIS ENTRY HAS 515 RAMACHANDRAN OUTLIERS. 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 AG A 200 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25658 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 CONSTRUCT RESIDUES 2-89 CORRESPOND TO Q58AF3 36-123, REMARK 999 RESIDUES 92-174 CORRESPOND TO Q58AF3 344-426 DBREF 5A4G A 2 89 UNP Q58AF3 Q58AF3_RALME 36 123 DBREF 5A4G A 92 174 UNP Q58AF3 Q58AF3_RALME 344 426 SEQADV 5A4G MET A 1 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G LEU A 175 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G GLU A 176 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G VAL A 177 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G LEU A 178 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G PHE A 179 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G GLN A 180 UNP Q58AF3 EXPRESSION TAG SEQADV 5A4G GLY A 90 UNP Q58AF3 LINKER SEQADV 5A4G SER A 91 UNP Q58AF3 LINKER SEQRES 1 A 180 MET GLY SER ALA THR VAL ASN GLY PRO HIS ASP GLY HIS SEQRES 2 A 180 ASP PRO ALA ALA GLY ALA GLU LEU LYS THR GLY LYS ARG SEQRES 3 A 180 ILE LEU TYR TRP ARG ASP PRO MET VAL PRO GLY GLN ARG SEQRES 4 A 180 PHE ASP LYS PRO GLY LYS SER PRO TYR MET ASP MET PRO SEQRES 5 A 180 LEU ILE PRO VAL TYR GLU GLU GLU ASN ALA ASP GLY ALA SEQRES 6 A 180 ALA VAL ARG ILE ASP GLY ARG VAL THR GLN ASN LEU GLY SEQRES 7 A 180 VAL ARG THR ALA GLU VAL LYS LEU GLY ARG LEU GLY SER SEQRES 8 A 180 THR GLU ARG LEU LEU VAL PRO SER GLU ALA LEU ILE ARG SEQRES 9 A 180 THR GLY ALA ARG THR ILE ALA MET VAL ALA LYS GLY GLU SEQRES 10 A 180 GLY GLY PHE ASP PRO VAL GLU VAL LYS ALA GLY ALA THR SEQRES 11 A 180 ALA GLY GLY GLN SER GLU ILE LEU GLU GLY LEU LYS ALA SEQRES 12 A 180 GLY GLN GLN VAL VAL VAL SER GLY GLN PHE LEU ILE ASP SEQRES 13 A 180 SER GLU ALA SER LEU ARG GLY THR VAL ALA ARG MET GLN SEQRES 14 A 180 GLU THR THR SER GLY LEU GLU VAL LEU PHE GLN HET AG A 200 1 HETNAM AG SILVER ION FORMUL 2 AG AG 1+ HELIX 1 1 ASP A 156 LEU A 161 1 6 SHEET 1 AA 2 TRP A 30 ARG A 31 0 SHEET 2 AA 2 ILE A 54 PRO A 55 -1 O ILE A 54 N ARG A 31 SHEET 1 AB 7 THR A 81 GLU A 83 0 SHEET 2 AB 7 GLN A 146 VAL A 148 -1 O VAL A 147 N ALA A 82 SHEET 3 AB 7 ARG A 108 LYS A 115 -1 O MET A 112 N VAL A 148 SHEET 4 AB 7 GLY A 119 THR A 130 -1 O GLY A 119 N LYS A 115 SHEET 5 AB 7 GLN A 134 GLU A 139 -1 N GLU A 136 O ALA A 129 SHEET 6 AB 7 LEU A 95 PRO A 98 -1 O LEU A 95 N ILE A 137 SHEET 7 AB 7 LYS A 85 LEU A 86 -1 O LYS A 85 N LEU A 96 SHEET 1 AC 4 THR A 81 GLU A 83 0 SHEET 2 AC 4 GLN A 146 VAL A 148 -1 O VAL A 147 N ALA A 82 SHEET 3 AC 4 ARG A 108 LYS A 115 -1 O MET A 112 N VAL A 148 SHEET 4 AC 4 ILE A 103 THR A 105 1 O ILE A 103 N ILE A 110 SITE 1 AC1 4 ASP A 32 MET A 34 MET A 49 MET A 51 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