HEADER TRANSCRIPTION 16-OCT-09 2WVE TITLE STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI NIKR TITLE 2 FUNCTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE NICKEL-RESPONSIVE REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HPNIKR; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: 26695; SOURCE 5 ATCC: 43504; 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: PET11A KEYWDS TRANSCRIPTION FACTOR, TRANSCRIPTION REGULATION, RHH, DNA-BINDING, KEYWDS 2 TRANSCRIPTION, METAL-BINDING, METALLOREGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR C.DIAN,C.BAHLAWANE,C.MULLER,A.ROUND,C.DELAY,C.FAUQUANT,K.SCHAUER,H.DE AUTHOR 2 REUSE,I.MICHAUD-SORET,L.TERRADOT REVDAT 4 20-DEC-23 2WVE 1 REMARK REVDAT 3 26-MAY-10 2WVE 1 JRNL REMARK REVDAT 2 02-FEB-10 2WVE 1 JRNL REVDAT 1 19-JAN-10 2WVE 0 JRNL AUTH C.BAHLAWANE,C.DIAN,C.MULLER,A.ROUND,C.FAUQUANT,K.SCHAUER, JRNL AUTH 2 H.DE REUSE,L.TERRADOT,I.MICHAUD-SORET JRNL TITL STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI JRNL TITL 2 NIKR ACTIVATION. JRNL REF NUCLEIC ACIDS RES. V. 38 3106 2010 JRNL REFN ISSN 0305-1048 JRNL PMID 20089510 JRNL DOI 10.1093/NAR/GKP1216 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 30527 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1541 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.3216 - 4.9537 1.00 2920 128 0.2115 0.2155 REMARK 3 2 4.9537 - 3.9325 1.00 2918 144 0.1651 0.1644 REMARK 3 3 3.9325 - 3.4356 1.00 2907 145 0.1684 0.1956 REMARK 3 4 3.4356 - 3.1216 1.00 2905 131 0.1890 0.2003 REMARK 3 5 3.1216 - 2.8979 1.00 2912 160 0.2056 0.2062 REMARK 3 6 2.8979 - 2.7270 1.00 2871 177 0.2156 0.1982 REMARK 3 7 2.7270 - 2.5905 1.00 2923 127 0.2134 0.2434 REMARK 3 8 2.5905 - 2.4777 1.00 2839 200 0.2192 0.2252 REMARK 3 9 2.4777 - 2.3823 1.00 2906 145 0.2138 0.1990 REMARK 3 10 2.3823 - 2.3001 1.00 2885 184 0.2158 0.2184 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 52.10 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.86 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.94840 REMARK 3 B22 (A**2) : 1.94840 REMARK 3 B33 (A**2) : -3.89680 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 2192 REMARK 3 ANGLE : 0.693 2954 REMARK 3 CHIRALITY : 0.050 336 REMARK 3 PLANARITY : 0.002 376 REMARK 3 DIHEDRAL : 18.836 807 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A OR CHAIN B) AND (RESSEQ 9:63) REMARK 3 ORIGIN FOR THE GROUP (A): 45.6020 14.5800 22.8025 REMARK 3 T TENSOR REMARK 3 T11: 0.0588 T22: 0.1031 REMARK 3 T33: 0.0682 T12: 0.0111 REMARK 3 T13: -0.0004 T23: -0.0099 REMARK 3 L TENSOR REMARK 3 L11: 0.3246 L22: 2.8514 REMARK 3 L33: 1.8417 L12: 0.1189 REMARK 3 L13: 0.1540 L23: 0.4563 REMARK 3 S TENSOR REMARK 3 S11: -0.0116 S12: 0.0437 S13: 0.1100 REMARK 3 S21: 0.1379 S22: 0.0514 S23: 0.2139 REMARK 3 S31: 0.1140 S32: -0.1546 S33: -0.0465 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A OR CHAIN B) AND (RESSEQ 64:143) REMARK 3 ORIGIN FOR THE GROUP (A): 29.7613 22.8142 8.4424 REMARK 3 T TENSOR REMARK 3 T11: 0.1281 T22: 0.1023 REMARK 3 T33: 0.1022 T12: 0.0272 REMARK 3 T13: -0.0017 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 1.1935 L22: 1.6856 REMARK 3 L33: 0.6142 L12: -0.9630 REMARK 3 L13: 0.3461 L23: 0.2702 REMARK 3 S TENSOR REMARK 3 S11: 0.0940 S12: 0.0366 S13: -0.0855 REMARK 3 S21: -0.1569 S22: -0.0877 S23: 0.0757 REMARK 3 S31: -0.0619 S32: -0.0187 S33: 0.0286 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS REFINED USING FOBS+ REMARK 3 AND FOBS- AND NOT FOBS TO VERIFY THE PRESENCE OF METAL IONS REMARK 4 REMARK 4 2WVE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1290041248. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16561 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 46.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.80 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 15.30 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2CA9 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.4-0.7 M AMMONIUM SULFATE, 100 MM REMARK 280 CITRATE PH 5-5.4 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 25.14700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 59.38050 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 59.38050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.72050 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 59.38050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 59.38050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 12.57350 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 59.38050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.38050 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 37.72050 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 59.38050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.38050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 12.57350 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 25.14700 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -89.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLN 87 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLN 87 TO PHE REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 THR A 3 REMARK 465 PRO A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 REMARK 465 ASP A 7 REMARK 465 ASP A 8 REMARK 465 ALA A 55 REMARK 465 GLU A 56 REMARK 465 ASP A 57 REMARK 465 SER A 143 REMARK 465 PHE A 144 REMARK 465 GLU A 145 REMARK 465 TYR A 146 REMARK 465 ASN A 147 REMARK 465 GLU A 148 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 THR B 3 REMARK 465 PRO B 4 REMARK 465 ASN B 5 REMARK 465 LYS B 6 REMARK 465 ASP B 7 REMARK 465 ASP B 8 REMARK 465 SER B 142 REMARK 465 SER B 143 REMARK 465 PHE B 144 REMARK 465 GLU B 145 REMARK 465 TYR B 146 REMARK 465 ASN B 147 REMARK 465 GLU B 148 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 9 OG REMARK 470 ASN A 58 CG OD1 ND2 REMARK 470 GLU A 62 CG CD OE1 OE2 REMARK 470 ARG A 77 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 104 CG CD OE1 OE2 REMARK 470 HIS A 105 CG ND1 CD2 CE1 NE2 REMARK 470 SER B 9 OG REMARK 470 ARG B 77 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 137 CG CD CE NZ 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 PRO A 59 -162.44 -79.66 REMARK 500 ASN A 60 40.79 -80.10 REMARK 500 ASN B 58 79.37 -107.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 CIT A 1148 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1146 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1147 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT A 1148 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CAJ RELATED DB: PDB REMARK 900 NI2-HPNIKR HPNIKR IN CLOSED TRANS- CONFORMATION AND NICKEL BOUND TO REMARK 900 4 INTERMEDIARY SITES REMARK 900 RELATED ID: 2CA9 RELATED DB: PDB REMARK 900 APO-NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION REMARK 900 RELATED ID: 2CAD RELATED DB: PDB REMARK 900 NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION AND REMARK 900 NICKEL BOUND TO 2F, 2X AND 2I SITES REMARK 900 RELATED ID: 2WVB RELATED DB: PDB REMARK 900 STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI NIKR REMARK 900 FUNCTION REMARK 900 RELATED ID: 2WVD RELATED DB: PDB REMARK 900 STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI NIKR REMARK 900 FUNCTION REMARK 900 RELATED ID: 2WVF RELATED DB: PDB REMARK 900 STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI NIKR REMARK 900 FUNCTION REMARK 900 RELATED ID: 2WVC RELATED DB: PDB REMARK 900 STRUCTURAL AND MECHANISTIC INSIGHTS INTO HELICOBACTER PYLORI NIKR REMARK 900 FUNCTION DBREF 2WVE A 1 148 UNP O25896 NIKR_HELPY 1 148 DBREF 2WVE B 1 148 UNP O25896 NIKR_HELPY 1 148 SEQADV 2WVE PHE A 87 UNP O25896 GLN 87 ENGINEERED MUTATION SEQADV 2WVE PHE B 87 UNP O25896 GLN 87 ENGINEERED MUTATION SEQRES 1 A 148 MET ASP THR PRO ASN LYS ASP ASP SER ILE ILE ARG PHE SEQRES 2 A 148 SER VAL SER LEU GLN GLN ASN LEU LEU ASP GLU LEU ASP SEQRES 3 A 148 ASN ARG ILE ILE LYS ASN GLY TYR SER SER ARG SER GLU SEQRES 4 A 148 LEU VAL ARG ASP MET ILE ARG GLU LYS LEU VAL GLU ASP SEQRES 5 A 148 ASN TRP ALA GLU ASP ASN PRO ASN ASP GLU SER LYS ILE SEQRES 6 A 148 ALA VAL LEU VAL VAL ILE TYR ASP HIS HIS GLN ARG GLU SEQRES 7 A 148 LEU ASN GLN ARG MET ILE ASP ILE PHE HIS ALA SER GLY SEQRES 8 A 148 THR HIS VAL LEU CYS THR THR HIS ILE HIS MET ASP GLU SEQRES 9 A 148 HIS ASN CYS LEU GLU THR ILE ILE LEU GLN GLY ASN SER SEQRES 10 A 148 PHE GLU ILE GLN ARG LEU GLN LEU GLU ILE GLY GLY LEU SEQRES 11 A 148 ARG GLY VAL LYS PHE ALA LYS LEU THR LYS ALA SER SER SEQRES 12 A 148 PHE GLU TYR ASN GLU SEQRES 1 B 148 MET ASP THR PRO ASN LYS ASP ASP SER ILE ILE ARG PHE SEQRES 2 B 148 SER VAL SER LEU GLN GLN ASN LEU LEU ASP GLU LEU ASP SEQRES 3 B 148 ASN ARG ILE ILE LYS ASN GLY TYR SER SER ARG SER GLU SEQRES 4 B 148 LEU VAL ARG ASP MET ILE ARG GLU LYS LEU VAL GLU ASP SEQRES 5 B 148 ASN TRP ALA GLU ASP ASN PRO ASN ASP GLU SER LYS ILE SEQRES 6 B 148 ALA VAL LEU VAL VAL ILE TYR ASP HIS HIS GLN ARG GLU SEQRES 7 B 148 LEU ASN GLN ARG MET ILE ASP ILE PHE HIS ALA SER GLY SEQRES 8 B 148 THR HIS VAL LEU CYS THR THR HIS ILE HIS MET ASP GLU SEQRES 9 B 148 HIS ASN CYS LEU GLU THR ILE ILE LEU GLN GLY ASN SER SEQRES 10 B 148 PHE GLU ILE GLN ARG LEU GLN LEU GLU ILE GLY GLY LEU SEQRES 11 B 148 ARG GLY VAL LYS PHE ALA LYS LEU THR LYS ALA SER SER SEQRES 12 B 148 PHE GLU TYR ASN GLU HET SO4 A1143 5 HET SO4 A1144 5 HET GOL A1145 6 HET GOL A1146 6 HET TRS A1147 8 HET CIT A1148 13 HET SO4 B1142 5 HET SO4 B1143 5 HET SO4 B1144 5 HET GOL B1145 6 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM CIT CITRIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TRS TRIS BUFFER FORMUL 3 SO4 5(O4 S 2-) FORMUL 5 GOL 3(C3 H8 O3) FORMUL 7 TRS C4 H12 N O3 1+ FORMUL 8 CIT C6 H8 O7 FORMUL 13 HOH *94(H2 O) HELIX 1 1 GLN A 18 GLY A 33 1 16 HELIX 2 2 SER A 36 GLU A 51 1 16 HELIX 3 3 GLU A 78 GLY A 91 1 14 HELIX 4 4 ASN A 116 GLN A 121 1 6 HELIX 5 5 ARG A 122 LEU A 130 1 9 HELIX 6 6 GLN B 19 GLY B 33 1 15 HELIX 7 7 SER B 36 ALA B 55 1 20 HELIX 8 8 GLU B 78 SER B 90 1 13 HELIX 9 9 ASN B 116 GLY B 129 1 14 SHEET 1 AA 2 ILE A 10 LEU A 17 0 SHEET 2 AA 2 ILE B 11 GLN B 18 -1 O ILE B 11 N LEU A 17 SHEET 1 AB 4 HIS A 93 HIS A 101 0 SHEET 2 AB 4 ASN A 106 GLY A 115 -1 O LEU A 108 N ILE A 100 SHEET 3 AB 4 LYS A 64 ASP A 73 -1 O LYS A 64 N GLY A 115 SHEET 4 AB 4 VAL A 133 ALA A 141 -1 N LYS A 134 O ILE A 71 SHEET 1 BA 4 HIS B 93 ASP B 103 0 SHEET 2 BA 4 ASN B 106 GLY B 115 -1 O ASN B 106 N MET B 102 SHEET 3 BA 4 LYS B 64 TYR B 72 -1 O LYS B 64 N GLY B 115 SHEET 4 BA 4 VAL B 133 LYS B 140 -1 N LYS B 134 O ILE B 71 SITE 1 AC1 3 ARG B 42 ARG B 46 HOH B2044 SITE 1 AC2 9 ARG A 12 SER B 14 SER B 36 ARG B 37 SITE 2 AC2 9 HOH B2002 HOH B2045 HOH B2046 HOH B2047 SITE 3 AC2 9 HOH B2048 SITE 1 AC3 6 SER B 36 SER B 38 GLU B 39 ARG B 42 SITE 2 AC3 6 HOH B2050 HOH B2051 SITE 1 AC4 3 HIS A 93 VAL A 94 HIS B 74 SITE 1 AC5 4 SER A 35 SER A 36 GLU A 39 ARG A 42 SITE 1 AC6 9 LYS A 48 GLN A 124 LYS A 137 GOL A1145 SITE 2 AC6 9 ARG B 28 TYR B 34 ASP B 43 MET B 44 SITE 3 AC6 9 GLU B 47 SITE 1 AC7 8 LYS A 48 GLU A 51 LYS A 137 LYS A 140 SITE 2 AC7 8 HOH A2041 ARG B 28 ASN B 32 GOL B1145 SITE 1 AC8 5 GLY A 128 LYS A 134 PHE A 135 ALA A 136 SITE 2 AC8 5 HOH A2042 SITE 1 AC9 6 HIS A 74 HIS A 75 HIS A 101 GLU A 104 SITE 2 AC9 6 HOH A2043 HIS B 93 SITE 1 BC1 8 TYR A 72 HIS A 74 HIS A 99 HIS A 101 SITE 2 BC1 8 HOH A2043 ILE B 84 THR B 97 HIS B 99 CRYST1 118.761 118.761 50.294 90.00 90.00 90.00 P 43 21 2 16 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 0.008420 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008420 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019883 0.00000