PDB Short entry for 1MZY HEADER OXIDOREDUCTASE 10-OCT-02 1MZY TITLE CRYSTAL STRUCTURE OF NITRITE REDUCTASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-CONTAINING NITRITE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 41-371; COMPND 5 SYNONYM: NITRITE REDUCTASE, CU-NIR; COMPND 6 EC: 1.7.99.3; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOBACTER SPHAEROIDES; SOURCE 3 ORGANISM_TAXID: 1063; SOURCE 4 STRAIN: 2.4.3; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NITRITE REDUCTASE, MUTANT M182T, GATING MECHANISM, ELECTRON TRANSFER, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR H.GUO,K.OLESEN,Y.XUE,J.SHAPLIEGH,L.SJOLIN REVDAT 5 14-FEB-24 1MZY 1 REMARK SEQADV LINK REVDAT 4 07-MAR-18 1MZY 1 REMARK REVDAT 3 13-JUL-11 1MZY 1 VERSN REVDAT 2 24-FEB-09 1MZY 1 VERSN REVDAT 1 28-SEP-04 1MZY 0 JRNL AUTH H.GUO,K.OLESEN,Y.XUE,J.SHAPLIEGH,L.SJOLIN JRNL TITL THE HIGH RESOLUTION CRYSTAL STRUCTURES OF NITRITE REDUCTASE JRNL TITL 2 AND ITS MUTANT MET182THR FROM RHODOBACTER SPHAEROIDES REVEAL JRNL TITL 3 A GATING MECHANISM FOR THE ELECTRON TRANSFER TO THE TYPE 1 JRNL TITL 4 COPPER CENTER JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. 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, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 48257 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1930 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2545 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 316 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 9.42 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1MZY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1000017346. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-99 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.018 REMARK 200 MONOCHROMATOR : SI(111) MONOCHROMATOR REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48257 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 17.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.20400 REMARK 200 R SYM (I) : 0.18400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 2.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : 0.36500 REMARK 200 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6000 OR 4000, MAGNESIUM CHLORIDE, REMARK 280 PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.69600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 20.60910 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 48.74867 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 35.69600 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 20.60910 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 48.74867 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 35.69600 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 20.60910 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.74867 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 41.21819 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 97.49733 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 41.21819 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 97.49733 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 41.21819 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 97.49733 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 AND THIRD PARTS OF THE BIOLOGICAL ASSEMBLY ARE REMARK 300 GENERATED BY THE THREE FOLD AXIS: 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 13720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -130.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 71.39200 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 350 BIOMT1 3 -0.500000 0.866025 0.000000 35.69600 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 61.82729 REMARK 350 BIOMT3 3 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 VAL A 39 REMARK 465 ASP A 40 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O GLU A 86 O HOH A 795 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 MET A 93 CG - SD - CE ANGL. DEV. = -11.9 DEGREES REMARK 500 ARG A 308 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASN A 339 N - CA - C ANGL. DEV. = -17.2 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 ALA A 168 69.36 -160.94 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 CU A 401 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 126 ND1 REMARK 620 2 CYS A 167 SG 129.5 REMARK 620 3 HIS A 177 ND1 100.4 107.0 REMARK 620 4 MET A 182 SD 84.5 111.8 124.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 131 NE2 REMARK 620 2 HIS A 166 NE2 107.4 REMARK 620 3 HIS A 338 NE2 101.4 107.1 REMARK 620 4 HOH A 689 O 95.4 108.8 133.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 220 OD1 REMARK 620 2 THR A 224 OG1 95.6 REMARK 620 3 HOH A 632 O 90.2 92.3 REMARK 620 4 HOH A 648 O 95.3 84.3 173.8 REMARK 620 5 HOH A 652 O 89.4 174.6 89.7 93.2 REMARK 620 6 HOH A 711 O 174.6 85.8 84.5 90.0 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 638 O REMARK 620 2 HOH A 665 O 91.1 REMARK 620 3 HOH A 677 O 87.2 87.6 REMARK 620 4 HOH A 720 O 177.4 91.3 94.0 REMARK 620 5 HOH A 792 O 91.6 89.4 176.7 87.4 REMARK 620 6 HOH A 870 O 88.6 178.8 93.6 89.0 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 644 O REMARK 620 2 HOH A 725 O 82.8 REMARK 620 3 HOH A 810 O 98.0 167.7 REMARK 620 4 HOH A 851 O 84.5 93.7 74.2 REMARK 620 5 HOH A 853 O 88.1 98.4 93.9 165.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MZZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MUTANT (M182T)OF NITRITE REDUCTASE DBREF 1MZY A 39 371 UNP Q53239 NIR_RHOSH 39 371 SEQADV 1MZY ASP A 230 UNP Q53239 THR 230 CONFLICT SEQADV 1MZY ASN A 281 UNP Q53239 LYS 281 CONFLICT SEQADV 1MZY HIS A 351 UNP Q53239 SER 351 CONFLICT SEQADV 1MZY VAL A 367 UNP Q53239 TRP 367 CONFLICT SEQADV 1MZY ALA A 368 UNP Q53239 PRO 368 CONFLICT SEQRES 1 A 333 VAL ASP LEU SER ASN LEU PRO ARG VAL LYS HIS THR LEU SEQRES 2 A 333 VAL PRO PRO PRO PHE ALA HIS ALA HIS GLU GLN VAL ALA SEQRES 3 A 333 ALA SER GLY PRO VAL ILE ASN GLU PHE GLU MET ARG ILE SEQRES 4 A 333 ILE GLU LYS GLU VAL GLN LEU ASP GLU ASP ALA TYR LEU SEQRES 5 A 333 GLN ALA MET THR PHE ASP GLY SER ILE PRO GLY PRO LEU SEQRES 6 A 333 MET ILE VAL HIS GLU GLY ASP TYR VAL GLU LEU THR LEU SEQRES 7 A 333 ILE ASN PRO PRO GLU ASN THR MET PRO HIS ASN ILE ASP SEQRES 8 A 333 PHE HIS ALA ALA THR GLY ALA LEU GLY GLY GLY GLY LEU SEQRES 9 A 333 THR LEU ILE ASN PRO GLY GLU LYS VAL VAL LEU ARG PHE SEQRES 10 A 333 LYS ALA THR ARG ALA GLY ALA PHE VAL TYR HIS CYS ALA SEQRES 11 A 333 PRO GLY GLY PRO MET ILE PRO TRP HIS VAL VAL SER GLY SEQRES 12 A 333 MET ALA GLY CYS ILE MET VAL LEU PRO ARG ASP GLY LEU SEQRES 13 A 333 LYS ASP HIS GLU GLY LYS PRO VAL ARG TYR ASP THR VAL SEQRES 14 A 333 TYR TYR ILE GLY GLU SER ASP HIS TYR ILE PRO LYS ASP SEQRES 15 A 333 GLU ASP GLY THR TYR MET ARG PHE SER ASP PRO SER GLU SEQRES 16 A 333 GLY TYR GLU ASP MET VAL ALA VAL MET ASP THR LEU ILE SEQRES 17 A 333 PRO SER HIS ILE VAL PHE ASN GLY ALA VAL GLY ALA LEU SEQRES 18 A 333 THR GLY GLU GLY ALA LEU LYS ALA LYS VAL GLY ASP ASN SEQRES 19 A 333 VAL LEU PHE VAL HIS SER GLN PRO ASN ARG ASP SER ARG SEQRES 20 A 333 PRO HIS LEU ILE GLY GLY HIS GLY ASP LEU VAL TRP GLU SEQRES 21 A 333 THR GLY LYS PHE HIS ASN ALA PRO GLU ARG ASP LEU GLU SEQRES 22 A 333 THR TRP PHE ILE ARG GLY GLY THR ALA GLY ALA ALA LEU SEQRES 23 A 333 TYR LYS PHE LEU GLN PRO GLY VAL TYR ALA TYR VAL ASN SEQRES 24 A 333 HIS ASN LEU ILE GLU ALA VAL HIS LYS GLY ALA THR ALA SEQRES 25 A 333 HIS VAL LEU VAL GLU GLY GLU TRP ASP ASN ASP LEU MET SEQRES 26 A 333 GLU GLN VAL VAL ALA PRO VAL GLY HET CU A 401 1 HET CU A 402 1 HET MG A 501 1 HET MG A 502 1 HET MG A 503 1 HETNAM CU COPPER (II) ION HETNAM MG MAGNESIUM ION FORMUL 2 CU 2(CU 2+) FORMUL 4 MG 3(MG 2+) FORMUL 7 HOH *316(H2 O) HELIX 1 1 GLY A 135 THR A 143 5 9 HELIX 2 2 PRO A 172 SER A 180 1 9 HELIX 3 3 ASP A 230 ASP A 243 1 14 HELIX 4 4 THR A 260 ALA A 264 5 5 HELIX 5 5 ASN A 339 HIS A 345 1 7 SHEET 1 A 3 ALA A 88 PHE A 95 0 SHEET 2 A 3 ILE A 70 ASP A 85 -1 N ILE A 78 O THR A 94 SHEET 3 A 3 ARG A 46 LYS A 48 1 N VAL A 47 O GLU A 72 SHEET 1 B 4 ALA A 88 PHE A 95 0 SHEET 2 B 4 ILE A 70 ASP A 85 -1 N ILE A 78 O THR A 94 SHEET 3 B 4 TYR A 111 ASN A 118 1 O GLU A 113 N ASN A 71 SHEET 4 B 4 GLU A 149 LYS A 156 -1 O GLU A 149 N ASN A 118 SHEET 1 C 4 LEU A 103 HIS A 107 0 SHEET 2 C 4 ALA A 183 LEU A 189 1 O MET A 187 N MET A 104 SHEET 3 C 4 GLY A 161 HIS A 166 -1 N GLY A 161 O VAL A 188 SHEET 4 C 4 ASP A 129 PHE A 130 -1 N ASP A 129 O HIS A 166 SHEET 1 D 6 HIS A 249 PHE A 252 0 SHEET 2 D 6 THR A 206 HIS A 215 -1 N HIS A 215 O HIS A 249 SHEET 3 D 6 ASN A 272 GLN A 279 1 O VAL A 276 N ILE A 210 SHEET 4 D 6 THR A 319 LYS A 326 -1 O ALA A 323 N PHE A 275 SHEET 5 D 6 GLY A 293 TRP A 297 -1 N LEU A 295 O LEU A 324 SHEET 6 D 6 GLU A 307 LEU A 310 -1 O GLU A 307 N VAL A 296 SHEET 1 E 4 LEU A 265 LYS A 268 0 SHEET 2 E 4 THR A 349 GLU A 355 1 O HIS A 351 N LEU A 265 SHEET 3 E 4 GLY A 331 ASN A 337 -1 N GLY A 331 O VAL A 354 SHEET 4 E 4 PRO A 286 ILE A 289 -1 N ILE A 289 O ALA A 334 LINK ND1 HIS A 126 CU CU A 401 1555 1555 2.11 LINK NE2 HIS A 131 CU CU A 402 1555 1555 2.01 LINK NE2 HIS A 166 CU CU A 402 1555 1555 2.03 LINK SG CYS A 167 CU CU A 401 1555 1555 2.19 LINK ND1 HIS A 177 CU CU A 401 1555 1555 2.16 LINK SD AMET A 182 CU CU A 401 1555 1555 2.41 LINK OD1 ASP A 220 MG MG A 501 1555 1555 2.02 LINK OG1 THR A 224 MG MG A 501 1555 1555 2.09 LINK NE2 HIS A 338 CU CU A 402 3665 1555 2.01 LINK CU CU A 402 O HOH A 689 1555 1555 2.06 LINK MG MG A 501 O HOH A 632 1555 1555 2.15 LINK MG MG A 501 O HOH A 648 1555 1555 2.04 LINK MG MG A 501 O HOH A 652 1555 5555 2.01 LINK MG MG A 501 O HOH A 711 1555 5555 2.11 LINK MG MG A 502 O HOH A 638 1555 1555 2.03 LINK MG MG A 502 O HOH A 665 1555 9554 2.15 LINK MG MG A 502 O HOH A 677 1555 9554 2.04 LINK MG MG A 502 O HOH A 720 1555 9554 1.99 LINK MG MG A 502 O HOH A 792 1555 1555 2.06 LINK MG MG A 502 O HOH A 870 1555 1555 2.06 LINK MG MG A 503 O HOH A 644 1555 1555 2.19 LINK MG MG A 503 O HOH A 725 1555 1555 2.09 LINK MG MG A 503 O HOH A 810 1555 1555 2.44 LINK MG MG A 503 O HOH A 851 1555 1555 2.22 LINK MG MG A 503 O HOH A 853 1555 1555 1.76 CISPEP 1 PRO A 54 PRO A 55 0 1.49 CISPEP 2 ILE A 99 PRO A 100 0 -0.15 SITE 1 AC1 4 HIS A 126 CYS A 167 HIS A 177 MET A 182 SITE 1 AC2 5 HIS A 131 HIS A 166 HIS A 287 HIS A 338 SITE 2 AC2 5 HOH A 689 SITE 1 AC3 6 ASP A 220 THR A 224 HOH A 632 HOH A 648 SITE 2 AC3 6 HOH A 652 HOH A 711 SITE 1 AC4 6 HOH A 638 HOH A 665 HOH A 677 HOH A 720 SITE 2 AC4 6 HOH A 792 HOH A 870 SITE 1 AC5 5 HOH A 644 HOH A 725 HOH A 810 HOH A 851 SITE 2 AC5 5 HOH A 853 CRYST1 71.392 71.392 146.246 90.00 90.00 120.00 H 3 9 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 0.014007 0.008087 0.000000 0.00000 SCALE2 0.000000 0.016174 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006838 0.00000