HEADER OXIDOREDUCTASE 17-APR-05 2BP0 TITLE M144L MUTANT OF NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISSIMILATORY COPPER-CONTAINING NITRITE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NITRITE REDUCTASE, NIR; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DISSIMILATORY COPPER-CONTAINING NITRITE REDUCTASE; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: NITRITE REDUCTASE, NIR; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACHROMOBACTER XYLOSOXIDANS; SOURCE 3 ORGANISM_TAXID: 85698; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: ACHROMOBACTER XYLOSOXIDANS; SOURCE 9 ORGANISM_TAXID: 85698; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS OXIDOREDUCTASE, DENTRIFICATION, NITRITE REDUCTASE, ELECTRON TRANSFER, KEYWDS 2 M168L MUTANT, NITRATE ASSIMILATION, PERIPLASMIC EXPDTA X-RAY DIFFRACTION AUTHOR M.A.HOUGH,M.J.ELLIS,S.ANTONYUK,R.W.STRANGE,G.SAWERS,R.R.EADY, AUTHOR 2 S.S.HASNAIN REVDAT 4 13-DEC-23 2BP0 1 LINK REVDAT 3 24-FEB-09 2BP0 1 VERSN REVDAT 2 05-JUN-07 2BP0 1 TITLE REVDAT 1 26-JUL-06 2BP0 0 JRNL AUTH M.A.HOUGH,M.J.ELLIS,S.ANTONYUK,R.W.STRANGE,G.SAWERS, JRNL AUTH 2 R.R.EADY,S.S.HASNAIN JRNL TITL HIGH RESOLUTION STRUCTURAL STUDIES OF MUTANTS PROVIDE JRNL TITL 2 INSIGHTS INTO CATALYSIS AND ELECTRON TRANSFER PROCESSES IN JRNL TITL 3 COPPER NITRITE REDUCTASE JRNL REF J.MOL.BIOL. V. 350 300 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15927201 JRNL DOI 10.1016/J.JMB.2005.04.006 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 65115 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 + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3451 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4592 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 232 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5086 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 791 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.690 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5248 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 4655 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7165 ; 1.537 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10847 ; 0.897 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 668 ; 7.170 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 787 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5891 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1002 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 770 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4798 ; 0.238 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2713 ; 0.079 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 499 ; 0.207 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 17 ; 0.183 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 182 ; 0.306 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 68 ; 0.395 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3326 ; 0.854 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5360 ; 1.482 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1922 ; 2.312 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1805 ; 3.608 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2BP0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-APR-05. REMARK 100 THE DEPOSITION ID IS D_1290023662. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69754 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 70.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 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 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1OE1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 45.30250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.15541 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 97.14633 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 45.30250 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 26.15541 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 97.14633 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 45.30250 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 26.15541 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 97.14633 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.31082 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 194.29267 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 52.31082 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 194.29267 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 52.31082 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 194.29267 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 45.30250 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 78.46623 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -45.30250 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 78.46623 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 90.60500 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 156.93246 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -90.60500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 156.93246 REMARK 350 BIOMT3 3 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 A2050 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2078 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2093 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2094 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2181 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2045 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2069 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2285 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 CATALYTIC ACTIVITY REMARK 400 ENGINEERED RESIDUE IN CHAIN A, B MET 168 TO LEU 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 GLN A 1 REMARK 465 GLN B 1 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 LYS A 5 CG CD CE NZ REMARK 470 LYS A 27 CD CE NZ REMARK 470 LYS A 31 NZ REMARK 470 ASP A 48 CG OD1 OD2 REMARK 470 LYS A 49 CD CE NZ REMARK 470 LYS A 162 NZ REMARK 470 LYS A 217 CB CG CD CE NZ REMARK 470 LYS A 230 CE NZ REMARK 470 LYS A 319 CD CE NZ REMARK 470 ARG A 336 O NE CZ NH1 NH2 REMARK 470 LYS B 49 CD CE NZ REMARK 470 LYS B 162 CE NZ REMARK 470 LYS B 217 CE NZ REMARK 470 LYS B 230 CD CE NZ REMARK 470 LYS B 315 CD CE NZ REMARK 470 LYS B 329 CD CE NZ 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 HOH B 2179 O HOH B 2180 1.80 REMARK 500 SD MET A 135 O HOH A 2221 1.83 REMARK 500 O HOH A 2066 O HOH A 2416 1.92 REMARK 500 CA LYS A 217 O HOH A 2313 1.92 REMARK 500 O1 SO4 B 1346 O HOH B 2364 2.06 REMARK 500 OD2 ASP B 245 O HOH B 2283 2.08 REMARK 500 O GLU A 40 O HOH A 2077 2.10 REMARK 500 O HOH B 2193 O HOH B 2196 2.12 REMARK 500 SD MET B 135 O HOH B 2180 2.13 REMARK 500 O HOH A 2137 O HOH A 2293 2.15 REMARK 500 O HOH A 2343 O HOH A 2357 2.16 REMARK 500 SD MET A 87 O HOH A 2284 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2212 O HOH A 2212 2565 1.07 REMARK 500 O HOH B 2284 O HOH B 2318 3575 2.18 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 ASP A 92 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 122 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP A 167 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP B 92 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 158 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 167 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG B 205 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 205 NE - CZ - NH2 ANGL. DEV. = -4.4 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 GLN A 24 -104.85 -78.32 REMARK 500 ASN A 90 -168.64 -162.82 REMARK 500 ALA A 131 71.34 -155.13 REMARK 500 LEU A 207 18.25 58.71 REMARK 500 GLN B 24 -102.49 -76.25 REMARK 500 LEU B 221 46.08 -104.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 300 ASN A 301 144.26 REMARK 500 HIS B 300 ASN B 301 145.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2017 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A2050 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A2061 DISTANCE = 7.59 ANGSTROMS REMARK 525 HOH A2089 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH A2093 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH A2178 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B2045 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH B2106 DISTANCE = 6.05 ANGSTROMS 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 ZN A1342 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 8 ND1 REMARK 620 2 GLU A 34 OE1 77.9 REMARK 620 3 HOH A2414 O 154.8 82.0 REMARK 620 4 HOH A2415 O 93.2 91.7 72.3 REMARK 620 5 HOH A2416 O 122.7 101.8 76.2 143.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1343 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 8 NE2 REMARK 620 2 HOH A2417 O 129.5 REMARK 620 3 HOH A2418 O 92.6 131.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1340 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 70 ND1 REMARK 620 2 ASP A 73 OD2 111.6 REMARK 620 3 HOH A2411 O 88.1 92.8 REMARK 620 4 HOH A2412 O 116.9 105.0 139.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1337 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 89 ND1 REMARK 620 2 CYS A 130 SG 127.3 REMARK 620 3 HIS A 139 ND1 105.0 124.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1338 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 94 NE2 REMARK 620 2 HIS A 129 NE2 107.8 REMARK 620 3 HIS A 300 NE2 103.2 110.8 REMARK 620 4 HOH A2173 O 116.2 110.5 108.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1339 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 165 NE2 REMARK 620 2 ASP A 167 OD2 124.7 REMARK 620 3 ASP A 167 OD1 94.3 50.4 REMARK 620 4 HOH A2410 O 107.6 98.1 148.5 REMARK 620 5 GLU B 195 OE1 137.8 90.7 92.3 86.5 REMARK 620 6 GLU B 195 OE2 84.4 132.8 96.6 107.6 53.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1340 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 195 OE2 REMARK 620 2 HIS B 165 NE2 118.5 REMARK 620 3 ASP B 167 OD2 105.8 119.0 REMARK 620 4 ASP B 167 OD1 90.7 85.4 53.0 REMARK 620 5 HOH B2352 O 100.1 113.2 96.5 149.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1344 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 307 OE2 REMARK 620 2 HOH A2419 O 163.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1341 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 313 NE2 REMARK 620 2 SO4 A1345 O2 112.7 REMARK 620 3 SO4 A1346 O4 121.3 110.2 REMARK 620 4 HOH A2413 O 108.8 104.1 97.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1342 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 34 OE1 REMARK 620 2 HOH B2354 O 140.1 REMARK 620 3 HOH B2355 O 86.7 113.8 REMARK 620 4 HOH B2356 O 100.5 66.0 168.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1339 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 70 ND1 REMARK 620 2 ASP B 73 OD2 118.4 REMARK 620 3 HOH B2351 O 115.3 102.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU B1337 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 89 ND1 REMARK 620 2 CYS B 130 SG 129.6 REMARK 620 3 HIS B 139 ND1 99.4 127.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU B1338 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 94 NE2 REMARK 620 2 HIS B 129 NE2 108.5 REMARK 620 3 HIS B 300 NE2 102.1 107.8 REMARK 620 4 HOH B2134 O 113.0 116.0 108.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1341 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 313 NE2 REMARK 620 2 SO4 B1344 O3 106.8 REMARK 620 3 SO4 B1345 O2 120.7 122.8 REMARK 620 4 HOH B2353 O 105.9 101.4 94.9 REMARK 620 N 1 2 3 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A1337 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A1338 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1339 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1340 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1341 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1342 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1343 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1344 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1345 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1346 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU B1337 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU B1338 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1339 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1340 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1341 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1342 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1343 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1344 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1345 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1346 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BQ5 RELATED DB: PDB REMARK 900 NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS GIFU 1051 REMARK 900 RELATED ID: 1GS6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF M144A MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 1GS7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF H254F MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 1GS8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF M144A MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 1HAU RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF A BLUE COPPER NITRITE REDUCTASE AT HIGH PH AND REMARK 900 IN COPPER FREE FORM AT 1.9E RESOLUTION REMARK 900 RELATED ID: 1HAW RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF A BLUE COPPER NITRITE REDUCTASE AT HIGH PH AND REMARK 900 IN COPPER FREE FORM AT 1.9E RESOLUTION REMARK 900 RELATED ID: 1NDT RELATED DB: PDB REMARK 900 NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS REMARK 900 RELATED ID: 1OE1 RELATED DB: PDB REMARK 900 ATOMIC RESOLUTION STRUCTURE OF THE WILDTYPE NATIVE NITRITE REMARK 900 REDUCTASE FROM ALCALIGENES XYLOSOXIDANS REMARK 900 RELATED ID: 1OE2 RELATED DB: PDB REMARK 900 ATOMIC RESOLUTION STRUCTURE OF D92E MUTANT OF ALCALIGENES REMARK 900 XYLOSOXIDANS NITRITE REDUCTASE REMARK 900 RELATED ID: 1OE3 RELATED DB: PDB REMARK 900 ATOMIC RESOLUTION STRUCTURE OF 'HALF APO' NIR REMARK 900 RELATED ID: 1WA0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF W138H MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 1WA1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF H313Q MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 1WA2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF H313Q MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE WITH NITRITE BOUND REMARK 900 RELATED ID: 1WAE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF H129V MUTANT OF ALCALIGENES XYLOSOXIDANS REMARK 900 NITRITE REDUCTASE REMARK 900 RELATED ID: 2BO0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C130A MUTANT OF NITRITE REDUCTASE FROM REMARK 900 ALCALIGENES XYLOSOXIDANS REMARK 900 RELATED ID: 2BP8 RELATED DB: PDB REMARK 900 M144Q STRUCTURE OF NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS DBREF 2BP0 A 1 336 UNP O68601 O68601_ALCXX 25 360 DBREF 2BP0 B 1 336 UNP O68601 O68601_ALCXX 25 360 SEQADV 2BP0 SER A 26 UNP O68601 THR 50 CONFLICT SEQADV 2BP0 THR A 28 UNP O68601 SER 52 CONFLICT SEQADV 2BP0 LEU A 144 UNP O68601 MET 168 ENGINEERED MUTATION SEQADV 2BP0 GLU A 160 UNP O68601 GLN 184 CONFLICT SEQADV 2BP0 LEU B 144 UNP O68601 MET 168 ENGINEERED MUTATION SEQADV 2BP0 GLU B 160 UNP O68601 GLN 184 CONFLICT SEQRES 1 A 336 GLN ASP ALA ASP LYS LEU PRO HIS THR LYS VAL THR LEU SEQRES 2 A 336 VAL ALA PRO PRO GLN VAL HIS PRO HIS GLU GLN ALA SER SEQRES 3 A 336 LYS THR GLY PRO LYS VAL VAL GLU PHE THR MET THR ILE SEQRES 4 A 336 GLU GLU LYS LYS MET VAL ILE ASP ASP LYS GLY THR THR SEQRES 5 A 336 LEU GLN ALA MET THR PHE ASN GLY SER MET PRO GLY PRO SEQRES 6 A 336 THR LEU VAL VAL HIS GLU GLY ASP TYR VAL GLN LEU THR SEQRES 7 A 336 LEU VAL ASN PRO ALA THR ASN ALA MET PRO HIS ASN VAL SEQRES 8 A 336 ASP PHE HIS GLY ALA THR GLY ALA LEU GLY GLY ALA LYS SEQRES 9 A 336 LEU THR ASN VAL ASN PRO GLY GLU GLN ALA THR LEU ARG SEQRES 10 A 336 PHE LYS ALA ASP ARG SER GLY THR PHE VAL TYR HIS CYS SEQRES 11 A 336 ALA PRO GLU GLY MET VAL PRO TRP HIS VAL VAL SER GLY SEQRES 12 A 336 LEU SER GLY THR LEU MET VAL LEU PRO ARG ASP GLY LEU SEQRES 13 A 336 LYS ASP PRO GLU GLY LYS PRO LEU HIS TYR ASP ARG ALA SEQRES 14 A 336 TYR THR ILE GLY GLU PHE ASP LEU TYR ILE PRO LYS GLY SEQRES 15 A 336 PRO ASP GLY LYS TYR LYS ASP TYR ALA THR LEU ALA GLU SEQRES 16 A 336 SER TYR GLY ASP THR VAL GLN VAL MET ARG THR LEU THR SEQRES 17 A 336 PRO SER HIS ILE VAL PHE ASN GLY LYS VAL GLY ALA LEU SEQRES 18 A 336 THR GLY ALA ASN ALA LEU THR ALA LYS VAL GLY GLU THR SEQRES 19 A 336 VAL LEU LEU ILE HIS SER GLN ALA ASN ARG ASP THR ARG SEQRES 20 A 336 PRO HIS LEU ILE GLY GLY HIS GLY ASP TRP VAL TRP GLU SEQRES 21 A 336 THR GLY LYS PHE ALA ASN PRO PRO GLN ARG ASP LEU GLU SEQRES 22 A 336 THR TRP PHE ILE ARG GLY GLY SER ALA GLY ALA ALA LEU SEQRES 23 A 336 TYR THR PHE LYS GLN PRO GLY VAL TYR ALA TYR LEU ASN SEQRES 24 A 336 HIS ASN LEU ILE GLU ALA PHE GLU LEU GLY ALA ALA GLY SEQRES 25 A 336 HIS ILE LYS VAL GLU GLY LYS TRP ASN ASP ASP LEU MET SEQRES 26 A 336 LYS GLN ILE LYS ALA PRO ALA PRO ILE PRO ARG SEQRES 1 B 336 GLN ASP ALA ASP LYS LEU PRO HIS THR LYS VAL THR LEU SEQRES 2 B 336 VAL ALA PRO PRO GLN VAL HIS PRO HIS GLU GLN ALA THR SEQRES 3 B 336 LYS SER GLY PRO LYS VAL VAL GLU PHE THR MET THR ILE SEQRES 4 B 336 GLU GLU LYS LYS MET VAL ILE ASP ASP LYS GLY THR THR SEQRES 5 B 336 LEU GLN ALA MET THR PHE ASN GLY SER MET PRO GLY PRO SEQRES 6 B 336 THR LEU VAL VAL HIS GLU GLY ASP TYR VAL GLN LEU THR SEQRES 7 B 336 LEU VAL ASN PRO ALA THR ASN ALA MET PRO HIS ASN VAL SEQRES 8 B 336 ASP PHE HIS GLY ALA THR GLY ALA LEU GLY GLY ALA LYS SEQRES 9 B 336 LEU THR ASN VAL ASN PRO GLY GLU GLN ALA THR LEU ARG SEQRES 10 B 336 PHE LYS ALA ASP ARG SER GLY THR PHE VAL TYR HIS CYS SEQRES 11 B 336 ALA PRO GLU GLY MET VAL PRO TRP HIS VAL VAL SER GLY SEQRES 12 B 336 LEU SER GLY THR LEU MET VAL LEU PRO ARG ASP GLY LEU SEQRES 13 B 336 LYS ASP PRO GLU GLY LYS PRO LEU HIS TYR ASP ARG ALA SEQRES 14 B 336 TYR THR ILE GLY GLU PHE ASP LEU TYR ILE PRO LYS GLY SEQRES 15 B 336 PRO ASP GLY LYS TYR LYS ASP TYR ALA THR LEU ALA GLU SEQRES 16 B 336 SER TYR GLY ASP THR VAL GLN VAL MET ARG THR LEU THR SEQRES 17 B 336 PRO SER HIS ILE VAL PHE ASN GLY LYS VAL GLY ALA LEU SEQRES 18 B 336 THR GLY ALA ASN ALA LEU THR ALA LYS VAL GLY GLU THR SEQRES 19 B 336 VAL LEU LEU ILE HIS SER GLN ALA ASN ARG ASP THR ARG SEQRES 20 B 336 PRO HIS LEU ILE GLY GLY HIS GLY ASP TRP VAL TRP GLU SEQRES 21 B 336 THR GLY LYS PHE ALA ASN PRO PRO GLN ARG ASP LEU GLU SEQRES 22 B 336 THR TRP PHE ILE ARG GLY GLY SER ALA GLY ALA ALA LEU SEQRES 23 B 336 TYR THR PHE LYS GLN PRO GLY VAL TYR ALA TYR LEU ASN SEQRES 24 B 336 HIS ASN LEU ILE GLU ALA PHE GLU LEU GLY ALA ALA GLY SEQRES 25 B 336 HIS ILE LYS VAL GLU GLY LYS TRP ASN ASP ASP LEU MET SEQRES 26 B 336 LYS GLN ILE LYS ALA PRO ALA PRO ILE PRO ARG HET CU A1337 1 HET CU A1338 1 HET ZN A1339 1 HET ZN A1340 1 HET ZN A1341 1 HET ZN A1342 1 HET ZN A1343 1 HET ZN A1344 1 HET SO4 A1345 5 HET SO4 A1346 5 HET CU B1337 1 HET CU B1338 1 HET ZN B1339 1 HET ZN B1340 1 HET ZN B1341 1 HET ZN B1342 1 HET ZN B1343 1 HET SO4 B1344 5 HET SO4 B1345 5 HET SO4 B1346 5 HETNAM CU COPPER (II) ION HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 3 CU 4(CU 2+) FORMUL 5 ZN 11(ZN 2+) FORMUL 11 SO4 5(O4 S 2-) FORMUL 23 HOH *791(H2 O) HELIX 1 1 ASP A 2 LEU A 6 5 5 HELIX 2 2 GLY A 98 THR A 106 5 9 HELIX 3 3 MET A 135 SER A 142 1 8 HELIX 4 4 THR A 192 THR A 206 1 15 HELIX 5 5 THR A 222 ALA A 226 5 5 HELIX 6 6 ASN A 301 GLU A 307 1 7 HELIX 7 7 ASP B 2 LEU B 6 5 5 HELIX 8 8 GLY B 98 THR B 106 5 9 HELIX 9 9 MET B 135 SER B 142 1 8 HELIX 10 10 THR B 192 THR B 206 1 15 HELIX 11 11 THR B 222 ALA B 226 5 5 HELIX 12 12 ASN B 301 GLU B 307 1 7 SHEET 1 AA 4 HIS A 8 LYS A 10 0 SHEET 2 AA 4 VAL A 32 VAL A 45 1 O VAL A 32 N THR A 9 SHEET 3 AA 4 TYR A 74 ASN A 81 1 O TYR A 74 N VAL A 33 SHEET 4 AA 4 GLU A 112 LYS A 119 -1 O GLU A 112 N ASN A 81 SHEET 1 AB 3 HIS A 8 LYS A 10 0 SHEET 2 AB 3 VAL A 32 VAL A 45 1 O VAL A 32 N THR A 9 SHEET 3 AB 3 THR A 52 PHE A 58 -1 O LEU A 53 N MET A 44 SHEET 1 AC 4 LEU A 67 HIS A 70 0 SHEET 2 AC 4 SER A 145 LEU A 151 1 O THR A 147 N LEU A 67 SHEET 3 AC 4 GLY A 124 HIS A 129 -1 O GLY A 124 N VAL A 150 SHEET 4 AC 4 ASP A 92 PHE A 93 -1 O ASP A 92 N HIS A 129 SHEET 1 AD 6 HIS A 211 PHE A 214 0 SHEET 2 AD 6 ARG A 168 LEU A 177 -1 O PHE A 175 N VAL A 213 SHEET 3 AD 6 THR A 234 GLN A 241 1 O LEU A 236 N TYR A 170 SHEET 4 AD 6 SER A 281 THR A 288 -1 O SER A 281 N GLN A 241 SHEET 5 AD 6 GLY A 255 TRP A 259 -1 N ASP A 256 O LEU A 286 SHEET 6 AD 6 GLN A 269 LEU A 272 -1 O GLN A 269 N VAL A 258 SHEET 1 AE 4 LEU A 227 LYS A 230 0 SHEET 2 AE 4 ALA A 311 GLU A 317 1 O HIS A 313 N LEU A 227 SHEET 3 AE 4 GLY A 293 ASN A 299 -1 O GLY A 293 N VAL A 316 SHEET 4 AE 4 PRO A 248 ILE A 251 -1 O HIS A 249 N LEU A 298 SHEET 1 BA 4 HIS B 8 LYS B 10 0 SHEET 2 BA 4 VAL B 32 VAL B 45 1 O VAL B 32 N THR B 9 SHEET 3 BA 4 TYR B 74 ASN B 81 1 O TYR B 74 N VAL B 33 SHEET 4 BA 4 GLU B 112 LYS B 119 -1 O GLU B 112 N ASN B 81 SHEET 1 BB 3 HIS B 8 LYS B 10 0 SHEET 2 BB 3 VAL B 32 VAL B 45 1 O VAL B 32 N THR B 9 SHEET 3 BB 3 THR B 52 PHE B 58 -1 O LEU B 53 N MET B 44 SHEET 1 BC 4 LEU B 67 HIS B 70 0 SHEET 2 BC 4 SER B 145 LEU B 151 1 O THR B 147 N LEU B 67 SHEET 3 BC 4 GLY B 124 HIS B 129 -1 O GLY B 124 N VAL B 150 SHEET 4 BC 4 ASP B 92 PHE B 93 -1 O ASP B 92 N HIS B 129 SHEET 1 BD 6 HIS B 211 PHE B 214 0 SHEET 2 BD 6 ARG B 168 LEU B 177 -1 O PHE B 175 N VAL B 213 SHEET 3 BD 6 THR B 234 GLN B 241 1 O LEU B 236 N TYR B 170 SHEET 4 BD 6 SER B 281 THR B 288 -1 O SER B 281 N GLN B 241 SHEET 5 BD 6 GLY B 255 TRP B 259 -1 N ASP B 256 O LEU B 286 SHEET 6 BD 6 GLN B 269 LEU B 272 -1 O GLN B 269 N VAL B 258 SHEET 1 BE 4 LEU B 227 LYS B 230 0 SHEET 2 BE 4 ALA B 311 GLU B 317 1 O HIS B 313 N LEU B 227 SHEET 3 BE 4 GLY B 293 ASN B 299 -1 O GLY B 293 N VAL B 316 SHEET 4 BE 4 PRO B 248 LEU B 250 -1 O HIS B 249 N LEU B 298 LINK ND1 HIS A 8 ZN ZN A1342 1555 1555 2.35 LINK NE2 HIS A 8 ZN ZN A1343 1555 1555 1.93 LINK OE1 GLU A 34 ZN ZN A1342 1555 1555 1.99 LINK ND1 HIS A 70 ZN ZN A1340 1555 1555 2.57 LINK OD2 ASP A 73 ZN ZN A1340 1555 1555 2.08 LINK ND1 HIS A 89 CU CU A1337 1555 1555 2.16 LINK NE2 HIS A 94 CU CU A1338 1555 1555 2.05 LINK NE2 HIS A 129 CU CU A1338 1555 1555 1.98 LINK SG CYS A 130 CU CU A1337 1555 1555 2.13 LINK ND1 HIS A 139 CU CU A1337 1555 1555 2.08 LINK NE2 HIS A 165 ZN ZN A1339 1555 1555 2.08 LINK OD2 ASP A 167 ZN ZN A1339 1555 1555 2.04 LINK OD1 ASP A 167 ZN ZN A1339 1555 1555 2.77 LINK OE2 GLU A 195 ZN ZN B1340 1555 1555 2.30 LINK NE2 HIS A 300 CU CU A1338 3565 1555 2.17 LINK OE2 GLU A 307 ZN ZN A1344 1555 1555 2.19 LINK NE2 HIS A 313 ZN ZN A1341 1555 1555 2.07 LINK CU CU A1338 O HOH A2173 1555 1555 2.01 LINK ZN ZN A1339 O HOH A2410 1555 1555 1.86 LINK ZN ZN A1339 OE1 GLU B 195 1555 8664 2.44 LINK ZN ZN A1339 OE2 GLU B 195 1555 8664 2.54 LINK ZN ZN A1340 O HOH A2411 1555 1555 2.07 LINK ZN ZN A1340 O HOH A2412 1555 1555 2.18 LINK ZN ZN A1341 O2 SO4 A1345 1555 1555 1.69 LINK ZN ZN A1341 O4 SO4 A1346 1555 1555 2.01 LINK ZN ZN A1341 O HOH A2413 1555 1555 2.51 LINK ZN ZN A1342 O HOH A2414 1555 1555 1.90 LINK ZN ZN A1342 O HOH A2415 1555 1555 1.98 LINK ZN ZN A1342 O HOH A2416 1555 1555 1.97 LINK ZN ZN A1343 O HOH A2417 1555 1555 2.04 LINK ZN ZN A1343 O HOH A2418 1555 1555 1.75 LINK ZN ZN A1344 O HOH A2419 1555 1555 2.14 LINK NE2 HIS B 8 ZN ZN B1343 1555 1555 2.09 LINK OE1 GLU B 34 ZN ZN B1342 1555 1555 2.12 LINK ND1 HIS B 70 ZN ZN B1339 1555 1555 2.54 LINK OD2 ASP B 73 ZN ZN B1339 1555 1555 2.05 LINK ND1 HIS B 89 CU CU B1337 1555 1555 2.18 LINK NE2 HIS B 94 CU CU B1338 1555 1555 2.10 LINK NE2 HIS B 129 CU CU B1338 1555 1555 1.98 LINK SG CYS B 130 CU CU B1337 1555 1555 2.14 LINK ND1 HIS B 139 CU CU B1337 1555 1555 2.10 LINK NE2 HIS B 165 ZN ZN B1340 1555 1555 2.17 LINK OD2 ASP B 167 ZN ZN B1340 1555 1555 2.12 LINK OD1 ASP B 167 ZN ZN B1340 1555 1555 2.58 LINK NE2 HIS B 300 CU CU B1338 3575 1555 2.23 LINK NE2 HIS B 313 ZN ZN B1341 1555 1555 1.98 LINK CU CU B1338 O HOH B2134 1555 1555 1.92 LINK ZN ZN B1339 O HOH B2351 1555 1555 2.43 LINK ZN ZN B1340 O HOH B2352 1555 1555 1.85 LINK ZN ZN B1341 O3 SO4 B1344 1555 1555 1.50 LINK ZN ZN B1341 O2 SO4 B1345 1555 1555 1.88 LINK ZN ZN B1341 O HOH B2353 1555 1555 2.34 LINK ZN ZN B1342 O HOH B2354 1555 1555 2.42 LINK ZN ZN B1342 O HOH B2355 1555 1555 1.72 LINK ZN ZN B1342 O HOH B2356 1555 1555 2.22 CISPEP 1 PRO A 16 PRO A 17 0 7.09 CISPEP 2 MET A 62 PRO A 63 0 -4.99 CISPEP 3 PRO B 16 PRO B 17 0 4.03 CISPEP 4 MET B 62 PRO B 63 0 -7.11 SITE 1 AC1 4 HIS A 89 CYS A 130 HIS A 139 LEU A 144 SITE 1 AC2 4 HIS A 94 HIS A 129 HIS A 300 HOH A2173 SITE 1 AC3 4 HIS A 165 ASP A 167 HOH A2410 GLU B 195 SITE 1 AC4 4 HIS A 70 ASP A 73 HOH A2411 HOH A2412 SITE 1 AC5 4 HIS A 313 SO4 A1345 SO4 A1346 HOH A2413 SITE 1 AC6 5 HIS A 8 GLU A 34 HOH A2414 HOH A2415 SITE 2 AC6 5 HOH A2416 SITE 1 AC7 4 ASP A 4 HIS A 8 HOH A2417 HOH A2418 SITE 1 AC8 2 GLU A 307 HOH A2419 SITE 1 AC9 5 HIS A 313 ZN A1341 SO4 A1346 HOH A2422 SITE 2 AC9 5 HOH A2423 SITE 1 BC1 7 HIS A 313 ZN A1341 SO4 A1345 HOH A2424 SITE 2 BC1 7 HOH A2425 HOH A2426 HOH A2427 SITE 1 BC2 4 HIS B 89 CYS B 130 HIS B 139 LEU B 144 SITE 1 BC3 4 HIS B 94 HIS B 129 HIS B 300 HOH B2134 SITE 1 BC4 3 HIS B 70 ASP B 73 HOH B2351 SITE 1 BC5 4 GLU A 195 HIS B 165 ASP B 167 HOH B2352 SITE 1 BC6 5 HIS B 313 SO4 B1344 SO4 B1345 HOH B2353 SITE 2 BC6 5 HOH B2360 SITE 1 BC7 6 HIS B 8 GLU B 34 HOH B2354 HOH B2355 SITE 2 BC7 6 HOH B2356 HOH B2357 SITE 1 BC8 3 ALA B 3 ASP B 4 HIS B 8 SITE 1 BC9 8 GLU B 133 HIS B 313 ZN B1341 SO4 B1345 SITE 2 BC9 8 HOH B2353 HOH B2358 HOH B2359 HOH B2360 SITE 1 CC1 6 HIS B 313 ZN B1341 SO4 B1344 HOH B2360 SITE 2 CC1 6 HOH B2362 HOH B2363 SITE 1 CC2 3 LYS B 188 ASP B 199 HOH B2364 CRYST1 90.605 90.605 291.439 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 0.011037 0.006372 0.000000 0.00000 SCALE2 0.000000 0.012744 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003431 0.00000