HEADER TRANSCRIPTION 16-OCT-09 2WVC 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 2WVC 1 REMARK REVDAT 3 26-MAY-10 2WVC 1 JRNL REMARK REVDAT 2 02-FEB-10 2WVC 1 JRNL REVDAT 1 19-JAN-10 2WVC 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. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.150 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 37356 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1911 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 35.0104 - 4.5214 1.00 3584 158 0.2109 0.2193 REMARK 3 2 4.5214 - 3.5899 1.00 3570 178 0.1624 0.1688 REMARK 3 3 3.5899 - 3.1365 1.00 3563 188 0.1799 0.2020 REMARK 3 4 3.1365 - 2.8498 1.00 3533 188 0.1884 0.2010 REMARK 3 5 2.8498 - 2.6456 1.00 3568 195 0.2035 0.2260 REMARK 3 6 2.6456 - 2.4897 1.00 3528 210 0.2166 0.2202 REMARK 3 7 2.4897 - 2.3651 1.00 3519 184 0.2161 0.2584 REMARK 3 8 2.3651 - 2.2621 1.00 3570 213 0.2125 0.2645 REMARK 3 9 2.2621 - 2.1750 1.00 3533 204 0.2155 0.1809 REMARK 3 10 2.1750 - 2.1000 0.99 3477 193 0.2414 0.2929 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 : 0.36 REMARK 3 B_SOL : 44.74 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.880 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.56 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.09400 REMARK 3 B22 (A**2) : -2.09400 REMARK 3 B33 (A**2) : 4.18800 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 2205 REMARK 3 ANGLE : 0.708 2961 REMARK 3 CHIRALITY : 0.051 338 REMARK 3 PLANARITY : 0.002 381 REMARK 3 DIHEDRAL : 18.273 815 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 RESID 8:63 REMARK 3 ORIGIN FOR THE GROUP (A): 34.6625 31.4511 -3.8583 REMARK 3 T TENSOR REMARK 3 T11: 0.1706 T22: 0.1095 REMARK 3 T33: 0.2068 T12: -0.0330 REMARK 3 T13: 0.0537 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: -0.2383 L22: 1.0367 REMARK 3 L33: 0.2183 L12: 1.1221 REMARK 3 L13: -0.3043 L23: -0.2636 REMARK 3 S TENSOR REMARK 3 S11: 0.1370 S12: -0.0110 S13: 0.2275 REMARK 3 S21: 0.0596 S22: -0.0855 S23: 0.3349 REMARK 3 S31: -0.1124 S32: 0.0230 S33: -0.1163 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A OR CHAIN B) AND RESID 64:148 REMARK 3 ORIGIN FOR THE GROUP (A): 30.4830 9.1828 -3.8841 REMARK 3 T TENSOR REMARK 3 T11: 0.1141 T22: 0.0611 REMARK 3 T33: 0.0748 T12: -0.0012 REMARK 3 T13: 0.0083 T23: 0.0110 REMARK 3 L TENSOR REMARK 3 L11: 0.2860 L22: 0.6552 REMARK 3 L33: 0.2792 L12: 0.1053 REMARK 3 L13: 0.0071 L23: 0.0266 REMARK 3 S TENSOR REMARK 3 S11: -0.0474 S12: -0.0112 S13: -0.0140 REMARK 3 S21: -0.1013 S22: 0.0033 S23: 0.0580 REMARK 3 S31: -0.1203 S32: 0.0036 S33: 0.0312 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINED USING FOBS+ AND FOBS-, NOT FOBS REMARK 3 TO VERIFY THE PRESENCE OF METAL IONS. REMARK 4 REMARK 4 2WVC 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_1290041246. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-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 : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : SI(111) 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 : 20773 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 47.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : 0.50000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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 (%): 50.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 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 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.14133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 152.28267 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 114.21200 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 190.35333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.07067 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 76.14133 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 152.28267 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 190.35333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 114.21200 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 38.07067 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: 7830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.2 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2021 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, HIS 74 TO GLY REMARK 400 ENGINEERED RESIDUE IN CHAIN A, HIS 75 TO GLY REMARK 400 ENGINEERED RESIDUE IN CHAIN B, HIS 74 TO GLY REMARK 400 ENGINEERED RESIDUE IN CHAIN B, HIS 75 TO GLY 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 ASN A 53 REMARK 465 TRP A 54 REMARK 465 ALA A 55 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 ILE B 29 REMARK 465 ILE B 30 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 ASP A 8 CG OD1 OD2 REMARK 470 ILE A 11 CD1 REMARK 470 ARG A 12 NE CZ NH1 NH2 REMARK 470 GLN A 18 CG CD OE1 NE2 REMARK 470 LYS A 48 CD CE NZ REMARK 470 GLU A 56 CG CD OE1 OE2 REMARK 470 ASP A 57 CG OD1 OD2 REMARK 470 ARG B 12 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 18 CG CD OE1 NE2 REMARK 470 LYS B 31 CG CD CE NZ REMARK 470 GLU B 104 CG CD OE1 OE2 REMARK 470 LYS B 137 CE NZ REMARK 470 GLU B 148 CG CD OE1 OE2 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 SER A 9 -137.31 -90.27 REMARK 500 GLU A 78 -3.21 75.60 REMARK 500 ALA A 141 -89.74 -118.72 REMARK 500 GLU B 78 -6.34 86.31 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 FMT B 1149 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 1150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 1151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1153 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1154 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1146 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1147 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1155 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: 2WVE 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 DBREF 2WVC A 1 148 UNP O25896 NIKR_HELPY 1 148 DBREF 2WVC B 1 148 UNP O25896 NIKR_HELPY 1 148 SEQADV 2WVC GLY A 74 UNP O25896 HIS 74 ENGINEERED MUTATION SEQADV 2WVC GLY A 75 UNP O25896 HIS 75 ENGINEERED MUTATION SEQADV 2WVC GLY B 74 UNP O25896 HIS 74 ENGINEERED MUTATION SEQADV 2WVC GLY B 75 UNP O25896 HIS 75 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 GLY GLY GLN ARG GLU SEQRES 7 A 148 LEU ASN GLN ARG MET ILE ASP ILE GLN 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 GLY GLY GLN ARG GLU SEQRES 7 B 148 LEU ASN GLN ARG MET ILE ASP ILE GLN 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 GOL A1143 6 HET GOL A1144 6 HET GOL A1145 6 HET SO4 A1146 5 HET SO4 A1147 5 HET FMT B1149 3 HET FMT B1150 3 HET FMT B1151 3 HET GOL B1152 6 HET GOL B1153 6 HET SO4 B1154 5 HET SO4 B1155 5 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM FMT FORMIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 5(C3 H8 O3) FORMUL 6 SO4 4(O4 S 2-) FORMUL 8 FMT 3(C H2 O2) FORMUL 15 HOH *109(H2 O) HELIX 1 1 GLN A 19 ASN A 32 1 14 HELIX 2 2 SER A 36 VAL A 50 1 15 HELIX 3 3 GLU A 78 GLY A 91 1 14 HELIX 4 4 ASN A 116 GLY A 129 1 14 HELIX 5 5 GLN B 19 ARG B 28 1 10 HELIX 6 6 SER B 36 GLU B 56 1 21 HELIX 7 7 GLU B 78 ALA B 89 1 12 HELIX 8 8 ASN B 116 GLY B 129 1 14 HELIX 9 9 SER B 142 ASN B 147 1 6 SHEET 1 AA 2 ILE A 10 GLN A 18 0 SHEET 2 AA 2 ILE B 10 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 LYS A 140 -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 ASP B 103 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 ALA B 141 -1 N LYS B 134 O ILE B 71 SITE 1 AC1 5 THR A 139 GOL A1145 LEU B 138 THR B 139 SITE 2 AC1 5 HOH B2052 SITE 1 AC2 5 LYS A 31 ARG B 82 ILE B 86 HOH B2027 SITE 2 AC2 5 HOH B2053 SITE 1 AC3 1 ARG B 77 SITE 1 AC4 8 GLU A 78 GLN A 81 ARG A 82 LEU A 130 SITE 2 AC4 8 HOH A2021 HOH A2051 HOH A2052 ARG B 77 SITE 1 AC5 6 ARG A 82 GLY A 129 LEU A 130 ARG A 131 SITE 2 AC5 6 HOH A2039 HOH A2053 SITE 1 AC6 5 HOH A2017 MET B 83 GLN B 87 THR B 97 SITE 2 AC6 5 GLU B 109 SITE 1 AC7 4 GLY B 128 VAL B 133 PHE B 135 ALA B 136 SITE 1 AC8 5 LEU A 138 THR A 139 LYS A 140 LYS B 137 SITE 2 AC8 5 FMT B1149 SITE 1 AC9 7 HIS A 88 GLY B 74 HIS B 99 HIS B 101 SITE 2 AC9 7 CYS B 107 HOH B2054 HOH B2055 SITE 1 BC1 4 SER A 36 SER A 38 ARG A 42 SER B 16 SITE 1 BC2 4 ARG A 42 ASP A 43 ARG A 46 HOH A2054 SITE 1 BC3 3 SER A 16 SER B 38 ARG B 42 CRYST1 70.848 70.848 228.424 90.00 90.00 120.00 P 61 2 2 24 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 0.014115 0.008149 0.000000 0.00000 SCALE2 0.000000 0.016298 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004378 0.00000