PDB Short entry for 2HZA HEADER METAL BINDING PROTEIN 08-AUG-06 2HZA TITLE NICKEL-BOUND FULL-LENGTH ESCHERICHIA COLI NIKR COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICKEL-RESPONSIVE REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: NIKR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NICKEL-BINDING, RIBBON-HELIX-HELIX, TRANSCRIPTION FACTOR, METAL KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.R.SCHREITER,C.L.DRENNAN REVDAT 6 15-NOV-23 2HZA 1 REMARK REVDAT 5 30-AUG-23 2HZA 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2HZA 1 VERSN REVDAT 3 24-FEB-09 2HZA 1 VERSN REVDAT 2 26-SEP-06 2HZA 1 JRNL REVDAT 1 22-AUG-06 2HZA 0 JRNL AUTH E.R.SCHREITER,S.C.WANG,D.B.ZAMBLE,C.L.DRENNAN JRNL TITL NIKR-OPERATOR COMPLEX STRUCTURE AND THE MECHANISM OF JRNL TITL 2 REPRESSOR ACTIVATION BY METAL IONS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 13676 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16945905 JRNL DOI 10.1073/PNAS.0606247103 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 390730.160 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 15688 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.800 REMARK 3 FREE R VALUE TEST SET COUNT : 911 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2191 REMARK 3 BIN R VALUE (WORKING SET) : 0.3820 REMARK 3 BIN FREE R VALUE : 0.4200 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 131 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.037 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1945 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 25 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 8.66000 REMARK 3 B22 (A**2) : 8.66000 REMARK 3 B33 (A**2) : -17.31000 REMARK 3 B12 (A**2) : 7.42000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.38 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.39 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.47 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.700 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.490 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.920 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 5.240 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.790 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 56.66 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : CM3.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CM3.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HZA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000038939. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15688 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 43.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 11.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.8000 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) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: 1Q5Y, 1Q5V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 0.1 M HEPES - NA PH 7.5, 30% V/V POLYETHYLENE GLYCOL 400, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 60.56367 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 121.12733 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 121.12733 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 60.56367 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMBLY IS GENERATED REMARK 300 BY THE TWO FOLD AXIS: Y, X, -Z 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 14560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -156.0 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 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 GLU A 132 REMARK 465 ASP A 133 REMARK 465 ALA B 44 REMARK 465 THR B 45 REMARK 465 GLN B 46 REMARK 465 GLN B 47 REMARK 465 HIS B 48 REMARK 465 GLU B 132 REMARK 465 ASP B 133 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 11 CG OD1 OD2 REMARK 470 GLU A 14 CG CD OE1 OE2 REMARK 470 SER A 18 OG REMARK 470 ARG A 22 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 61 CG CD OE1 OE2 REMARK 470 LYS A 64 CG CD CE NZ REMARK 470 ARG A 65 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 66 CG OD1 OD2 REMARK 470 HIS A 77 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 119 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 ARG B 3 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 22 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 23 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 42 CG CD OE1 NE2 REMARK 470 GLU B 61 CG CD OE1 OE2 REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 LYS B 64 CG CD CE NZ REMARK 470 ARG B 65 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 92 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 119 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 131 CG CD CE NZ 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 ASP A 66 N - CA - C ANGL. DEV. = -18.5 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 LYS A 64 -122.25 -8.09 REMARK 500 ASP A 66 35.20 70.12 REMARK 500 HIS A 79 -6.41 -52.56 REMARK 500 VAL A 83 -63.94 -94.32 REMARK 500 GLN A 118 147.28 -29.83 REMARK 500 ARG B 22 -71.99 -59.96 REMARK 500 ARG B 23 -10.25 -47.48 REMARK 500 LYS B 64 -83.50 -6.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 76 NE2 REMARK 620 2 HIS B 87 NE2 171.1 REMARK 620 3 HIS B 89 ND1 90.4 98.5 REMARK 620 4 CYS B 95 SG 79.4 91.7 169.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 302 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 87 NE2 REMARK 620 2 HIS A 89 ND1 95.6 REMARK 620 3 CYS A 95 SG 90.8 173.6 REMARK 620 4 HIS B 76 NE2 167.2 94.1 79.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3CM B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Q5Y RELATED DB: PDB REMARK 900 RELATED ID: 1Q5V RELATED DB: PDB REMARK 900 RELATED ID: 2HZV RELATED DB: PDB DBREF 2HZA A 1 133 UNP P0A6Z6 NIKR_ECOLI 1 133 DBREF 2HZA B 1 133 UNP P0A6Z6 NIKR_ECOLI 1 133 SEQADV 2HZA MSE A 1 UNP P0A6Z6 MET 1 MODIFIED RESIDUE SEQADV 2HZA MSE A 105 UNP P0A6Z6 MET 105 MODIFIED RESIDUE SEQADV 2HZA MSE B 1 UNP P0A6Z6 MET 1 MODIFIED RESIDUE SEQADV 2HZA MSE B 105 UNP P0A6Z6 MET 105 MODIFIED RESIDUE SEQRES 1 A 133 MSE GLN ARG VAL THR ILE THR LEU ASP ASP ASP LEU LEU SEQRES 2 A 133 GLU THR LEU ASP SER LEU SER GLN ARG ARG GLY TYR ASN SEQRES 3 A 133 ASN ARG SER GLU ALA ILE ARG ASP ILE LEU ARG SER ALA SEQRES 4 A 133 LEU ALA GLN GLU ALA THR GLN GLN HIS GLY THR GLN GLY SEQRES 5 A 133 PHE ALA VAL LEU SER TYR VAL TYR GLU HIS GLU LYS ARG SEQRES 6 A 133 ASP LEU ALA SER ARG ILE VAL SER THR GLN HIS HIS HIS SEQRES 7 A 133 HIS ASP LEU SER VAL ALA THR LEU HIS VAL HIS ILE ASN SEQRES 8 A 133 HIS ASP ASP CYS LEU GLU ILE ALA VAL LEU LYS GLY ASP SEQRES 9 A 133 MSE GLY ASP VAL GLN HIS PHE ALA ASP ASP VAL ILE ALA SEQRES 10 A 133 GLN ARG GLY VAL ARG HIS GLY HIS LEU GLN CYS LEU PRO SEQRES 11 A 133 LYS GLU ASP SEQRES 1 B 133 MSE GLN ARG VAL THR ILE THR LEU ASP ASP ASP LEU LEU SEQRES 2 B 133 GLU THR LEU ASP SER LEU SER GLN ARG ARG GLY TYR ASN SEQRES 3 B 133 ASN ARG SER GLU ALA ILE ARG ASP ILE LEU ARG SER ALA SEQRES 4 B 133 LEU ALA GLN GLU ALA THR GLN GLN HIS GLY THR GLN GLY SEQRES 5 B 133 PHE ALA VAL LEU SER TYR VAL TYR GLU HIS GLU LYS ARG SEQRES 6 B 133 ASP LEU ALA SER ARG ILE VAL SER THR GLN HIS HIS HIS SEQRES 7 B 133 HIS ASP LEU SER VAL ALA THR LEU HIS VAL HIS ILE ASN SEQRES 8 B 133 HIS ASP ASP CYS LEU GLU ILE ALA VAL LEU LYS GLY ASP SEQRES 9 B 133 MSE GLY ASP VAL GLN HIS PHE ALA ASP ASP VAL ILE ALA SEQRES 10 B 133 GLN ARG GLY VAL ARG HIS GLY HIS LEU GLN CYS LEU PRO SEQRES 11 B 133 LYS GLU ASP MODRES 2HZA MSE A 1 MET SELENOMETHIONINE MODRES 2HZA MSE A 105 MET SELENOMETHIONINE MODRES 2HZA MSE B 1 MET SELENOMETHIONINE MODRES 2HZA MSE B 105 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 105 8 HET MSE B 1 8 HET MSE B 105 8 HET NI A 302 1 HET 3CM B 201 32 HET NI B 301 1 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION HETNAM 3CM 3-CYCLOHEXYLPROPYL 4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D- HETNAM 2 3CM GLUCOPYRANOSIDE HETSYN 3CM CYMAL-3 FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 3 NI 2(NI 2+) FORMUL 4 3CM C21 H38 O11 FORMUL 6 HOH *25(H2 O) HELIX 1 1 ASP A 9 ARG A 23 1 15 HELIX 2 2 ASN A 27 GLN A 46 1 20 HELIX 3 3 ASP A 66 HIS A 78 1 13 HELIX 4 4 MSE A 105 GLN A 118 1 14 HELIX 5 5 ASP B 9 GLY B 24 1 16 HELIX 6 6 ASN B 27 GLN B 42 1 16 HELIX 7 7 ASP B 66 HIS B 78 1 13 HELIX 8 8 MSE B 105 ALA B 117 1 13 SHEET 1 A 2 GLN A 2 LEU A 8 0 SHEET 2 A 2 GLN B 2 LEU B 8 -1 O ILE B 6 N VAL A 4 SHEET 1 B 4 SER A 82 HIS A 89 0 SHEET 2 B 4 ASP A 94 ASP A 104 -1 O LEU A 96 N VAL A 88 SHEET 3 B 4 GLN A 51 GLU A 61 -1 N LEU A 56 O ALA A 99 SHEET 4 B 4 VAL A 121 PRO A 130 -1 O LEU A 129 N PHE A 53 SHEET 1 C 4 SER B 82 VAL B 88 0 SHEET 2 C 4 ASP B 94 ASP B 104 -1 O VAL B 100 N ALA B 84 SHEET 3 C 4 GLN B 51 GLU B 61 -1 N LEU B 56 O ALA B 99 SHEET 4 C 4 VAL B 121 PRO B 130 -1 O ARG B 122 N VAL B 59 LINK C MSE A 1 N GLN A 2 1555 1555 1.33 LINK C ASP A 104 N MSE A 105 1555 1555 1.33 LINK C MSE A 105 N GLY A 106 1555 1555 1.33 LINK C MSE B 1 N GLN B 2 1555 1555 1.33 LINK C ASP B 104 N MSE B 105 1555 1555 1.33 LINK C MSE B 105 N GLY B 106 1555 1555 1.32 LINK NE2 HIS A 76 NI NI B 301 4555 1555 2.13 LINK NE2 HIS A 87 NI NI A 302 1555 1555 2.08 LINK ND1 HIS A 89 NI NI A 302 1555 1555 2.04 LINK SG CYS A 95 NI NI A 302 1555 1555 2.25 LINK NI NI A 302 NE2 HIS B 76 1555 4555 1.95 LINK NE2 HIS B 87 NI NI B 301 1555 1555 2.19 LINK ND1 HIS B 89 NI NI B 301 1555 1555 1.91 LINK SG CYS B 95 NI NI B 301 1555 1555 2.06 SITE 1 AC1 8 SER A 20 ARG A 23 TYR A 25 ARG B 3 SITE 2 AC1 8 THR B 5 GLU B 43 GLY B 124 HIS B 125 SITE 1 AC2 4 HIS A 76 HIS B 87 HIS B 89 CYS B 95 SITE 1 AC3 4 HIS A 87 HIS A 89 CYS A 95 HIS B 76 CRYST1 49.843 49.843 181.691 90.00 90.00 120.00 P 31 2 1 12 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 0.020063 0.011583 0.000000 0.00000 SCALE2 0.000000 0.023167 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005504 0.00000 HETATM 1 N MSE A 1 6.494 53.673 38.633 1.00 75.22 N HETATM 2 CA MSE A 1 5.315 52.840 38.995 1.00 76.54 C HETATM 3 C MSE A 1 4.027 53.644 38.931 1.00 71.49 C HETATM 4 O MSE A 1 3.752 54.454 39.817 1.00 71.31 O HETATM 5 CB MSE A 1 5.471 52.276 40.412 1.00 86.11 C HETATM 6 CG MSE A 1 6.468 51.141 40.540 1.00101.32 C HETATM 7 SE MSE A 1 5.947 49.587 39.508 1.00121.50 SE HETATM 8 CE MSE A 1 7.549 49.351 38.445 1.00112.20 C