HEADER OXIDOREDUCTASE 11-JUL-17 5OG6 TITLE CU NITRITE REDUCTASE SERIAL DATA AT VARYING TEMPERATURES RT 0.24MGY COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-CONTAINING NITRITE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CU-NIR; COMPND 5 EC: 1.7.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACHROMOBACTER CYCLOCLASTES; SOURCE 3 ORGANISM_TAXID: 223; SOURCE 4 GENE: NIRK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ELECTRON TRANSFER, NITRITE REDUCTASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.HORRELL,D.KEKILLI,R.W.STRANGE,M.A.HOUGH REVDAT 2 17-JAN-24 5OG6 1 LINK REVDAT 1 23-MAY-18 5OG6 0 JRNL AUTH S.HORRELL,D.KEKILLI,K.SEN,R.L.OWEN,F.S.N.DWORKOWSKI, JRNL AUTH 2 S.V.ANTONYUK,T.W.KEAL,C.W.YONG,R.R.EADY,S.S.HASNAIN, JRNL AUTH 3 R.W.STRANGE,M.A.HOUGH JRNL TITL ENZYME CATALYSIS CAPTURED USING MULTIPLE STRUCTURES FROM ONE JRNL TITL 2 CRYSTAL AT VARYING TEMPERATURES. JRNL REF IUCRJ V. 5 283 2018 JRNL REFN ESSN 2052-2525 JRNL PMID 29755744 JRNL DOI 10.1107/S205225251800386X REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 24169 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1248 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1772 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.3340 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.3290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2566 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.11 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) : 0.00000 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): 0.154 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.129 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.813 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2712 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2461 ; 0.008 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3684 ; 1.645 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5713 ; 0.997 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 343 ; 7.751 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 121 ;37.947 ;24.132 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 418 ;13.174 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;19.609 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 404 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3055 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 546 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1356 ; 1.416 ; 2.050 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1353 ; 1.413 ; 2.046 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1700 ; 2.245 ; 3.064 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1701 ; 2.244 ; 3.066 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1355 ; 2.061 ; 2.341 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1346 ; 2.027 ; 2.321 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1979 ; 3.359 ; 3.375 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2835 ; 5.602 ;24.365 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2834 ; 5.596 ;24.340 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5OG6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUL-17. REMARK 100 THE DEPOSITION ID IS D_1200005753. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS VERSION OCT 15, 2015 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25531 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 48.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 5I6K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CITRATE AT PH 5.0 AND REMARK 280 ~1.7 M AMMONIUM SULPHATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 48.12950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.12950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.12950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.12950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.12950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.12950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 48.12950 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 48.12950 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 48.12950 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 48.12950 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 48.12950 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 48.12950 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 48.12950 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 48.12950 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 48.12950 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 48.12950 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 48.12950 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 48.12950 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.0 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 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 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 A 678 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 731 LIES ON A SPECIAL POSITION. 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 7 REMARK 465 MET A 340 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 98 CB - CG - OD1 ANGL. DEV. = 7.7 DEGREES REMARK 500 ARG A 123 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 271 NE - CZ - NH2 ANGL. DEV. = 3.4 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 ALA A 137 66.93 -153.41 REMARK 500 GLU A 139 117.26 -36.83 REMARK 500 LEU A 213 18.12 58.89 REMARK 500 LEU A 227 47.05 -104.96 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 306 ASN A 307 143.81 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 501 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 95 ND1 REMARK 620 2 CYS A 136 SG 137.6 REMARK 620 3 HIS A 145 ND1 97.6 103.0 REMARK 620 4 MET A 150 SD 89.0 107.8 125.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 502 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 HIS A 135 NE2 104.8 REMARK 620 3 HIS A 306 NE2 73.1 92.9 REMARK 620 4 NO A 509 N 132.4 85.8 153.9 REMARK 620 5 NO A 509 O 154.6 92.9 124.9 29.6 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CU A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO A 509 DBREF 5OG6 A 7 340 UNP P25006 NIR_ACHCY 45 378 SEQRES 1 A 334 VAL ASP ILE SER THR LEU PRO ARG VAL LYS VAL ASP LEU SEQRES 2 A 334 VAL LYS PRO PRO PHE VAL HIS ALA HIS ASP GLN VAL ALA SEQRES 3 A 334 LYS THR GLY PRO ARG VAL VAL GLU PHE THR MET THR ILE SEQRES 4 A 334 GLU GLU LYS LYS LEU VAL ILE ASP ARG GLU GLY THR GLU SEQRES 5 A 334 ILE HIS ALA MET THR PHE ASN GLY SER VAL PRO GLY PRO SEQRES 6 A 334 LEU MET VAL VAL HIS GLU ASN ASP TYR VAL GLU LEU ARG SEQRES 7 A 334 LEU ILE ASN PRO ASP THR ASN THR LEU LEU HIS ASN ILE SEQRES 8 A 334 ASP PHE HIS ALA ALA THR GLY ALA LEU GLY GLY GLY ALA SEQRES 9 A 334 LEU THR GLN VAL ASN PRO GLY GLU GLU THR THR LEU ARG SEQRES 10 A 334 PHE LYS ALA THR LYS PRO GLY VAL PHE VAL TYR HIS CYS SEQRES 11 A 334 ALA PRO GLU GLY MET VAL PRO TRP HIS VAL THR SER GLY SEQRES 12 A 334 MET ASN GLY ALA ILE MET VAL LEU PRO ARG ASP GLY LEU SEQRES 13 A 334 LYS ASP GLU LYS GLY GLN PRO LEU THR TYR ASP LYS ILE SEQRES 14 A 334 TYR TYR VAL GLY GLU GLN ASP PHE TYR VAL PRO LYS ASP SEQRES 15 A 334 GLU ALA GLY ASN TYR LYS LYS TYR GLU THR PRO GLY GLU SEQRES 16 A 334 ALA TYR GLU ASP ALA VAL LYS ALA MET ARG THR LEU THR SEQRES 17 A 334 PRO THR HIS ILE VAL PHE ASN GLY ALA VAL GLY ALA LEU SEQRES 18 A 334 THR GLY ASP HIS ALA LEU THR ALA ALA VAL GLY GLU ARG SEQRES 19 A 334 VAL LEU VAL VAL HIS SER GLN ALA ASN ARG ASP THR ARG SEQRES 20 A 334 PRO HIS LEU ILE GLY GLY HIS GLY ASP TYR VAL TRP ALA SEQRES 21 A 334 THR GLY LYS PHE ARG ASN PRO PRO ASP LEU ASP GLN GLU SEQRES 22 A 334 THR TRP LEU ILE PRO GLY GLY THR ALA GLY ALA ALA PHE SEQRES 23 A 334 TYR THR PHE ARG GLN PRO GLY VAL TYR ALA TYR VAL ASN SEQRES 24 A 334 HIS ASN LEU ILE GLU ALA PHE GLU LEU GLY ALA ALA GLY SEQRES 25 A 334 HIS PHE LYS VAL THR GLY GLU TRP ASN ASP ASP LEU MET SEQRES 26 A 334 THR SER VAL VAL LYS PRO ALA SER MET HET CU A 501 1 HET CU A 502 1 HET ACT A 503 4 HET NO2 A 504 3 HET NO2 A 505 3 HET NO2 A 506 3 HET NO2 A 507 3 HET NO2 A 508 3 HET NO A 509 2 HETNAM CU COPPER (II) ION HETNAM ACT ACETATE ION HETNAM NO2 NITRITE ION HETNAM NO NITRIC OXIDE HETSYN NO NITROGEN MONOXIDE FORMUL 2 CU 2(CU 2+) FORMUL 4 ACT C2 H3 O2 1- FORMUL 5 NO2 5(N O2 1-) FORMUL 10 NO N O FORMUL 11 HOH *131(H2 O) HELIX 1 AA1 ASP A 8 LEU A 12 5 5 HELIX 2 AA2 GLY A 104 THR A 112 5 9 HELIX 3 AA3 MET A 141 THR A 147 1 7 HELIX 4 AA4 PRO A 199 GLU A 201 5 3 HELIX 5 AA5 ALA A 202 THR A 212 1 11 HELIX 6 AA6 THR A 228 ALA A 232 5 5 HELIX 7 AA7 ASN A 307 GLU A 313 1 7 SHEET 1 AA1 3 ARG A 14 LYS A 16 0 SHEET 2 AA1 3 VAL A 38 VAL A 51 1 O GLU A 40 N VAL A 15 SHEET 3 AA1 3 GLU A 58 PHE A 64 -1 O ALA A 61 N LYS A 48 SHEET 1 AA2 4 ARG A 14 LYS A 16 0 SHEET 2 AA2 4 VAL A 38 VAL A 51 1 O GLU A 40 N VAL A 15 SHEET 3 AA2 4 TYR A 80 ASN A 87 1 O TYR A 80 N VAL A 39 SHEET 4 AA2 4 GLU A 118 LYS A 125 -1 O THR A 120 N LEU A 85 SHEET 1 AA3 4 MET A 73 HIS A 76 0 SHEET 2 AA3 4 ASN A 151 LEU A 157 1 O MET A 155 N MET A 73 SHEET 3 AA3 4 GLY A 130 HIS A 135 -1 N GLY A 130 O VAL A 156 SHEET 4 AA3 4 ASP A 98 PHE A 99 -1 N ASP A 98 O HIS A 135 SHEET 1 AA4 2 LEU A 162 LYS A 163 0 SHEET 2 AA4 2 PRO A 169 LEU A 170 -1 O LEU A 170 N LEU A 162 SHEET 1 AA5 6 HIS A 217 PHE A 220 0 SHEET 2 AA5 6 LYS A 174 PHE A 183 -1 N GLN A 181 O VAL A 219 SHEET 3 AA5 6 ARG A 240 GLN A 247 1 O VAL A 244 N VAL A 178 SHEET 4 AA5 6 THR A 287 THR A 294 -1 O TYR A 293 N VAL A 241 SHEET 5 AA5 6 GLY A 261 TRP A 265 -1 N TYR A 263 O PHE A 292 SHEET 6 AA5 6 ASP A 275 GLN A 278 -1 O ASP A 275 N VAL A 264 SHEET 1 AA6 4 LEU A 233 ALA A 236 0 SHEET 2 AA6 4 ALA A 317 THR A 323 1 O LYS A 321 N LEU A 233 SHEET 3 AA6 4 GLY A 299 ASN A 305 -1 N GLY A 299 O VAL A 322 SHEET 4 AA6 4 PRO A 254 ILE A 257 -1 N ILE A 257 O ALA A 302 LINK ND1 HIS A 95 CU CU A 501 1555 1555 2.05 LINK NE2 HIS A 100 CU CU A 502 1555 1555 2.05 LINK NE2 HIS A 135 CU CU A 502 1555 1555 2.07 LINK SG CYS A 136 CU CU A 501 1555 1555 2.23 LINK ND1 HIS A 145 CU CU A 501 1555 1555 2.02 LINK SD MET A 150 CU CU A 501 1555 1555 2.40 LINK NE2 HIS A 306 CU CU A 502 1555 5555 2.07 LINK CU CU A 502 N NO A 509 1555 1555 2.49 LINK CU CU A 502 O NO A 509 1555 1555 1.99 CISPEP 1 PRO A 22 PRO A 23 0 11.38 CISPEP 2 VAL A 68 PRO A 69 0 -4.59 SITE 1 AC1 4 HIS A 95 CYS A 136 HIS A 145 MET A 150 SITE 1 AC2 4 HIS A 100 HIS A 135 HIS A 306 NO A 509 SITE 1 AC3 3 GLY A 229 HIS A 319 LYS A 321 SITE 1 AC4 6 ARG A 250 ASP A 251 ARG A 253 ASN A 307 SITE 2 AC4 6 NO2 A 505 HOH A 631 SITE 1 AC5 6 ARG A 250 ASP A 251 ARG A 253 GLU A 310 SITE 2 AC5 6 NO2 A 504 HOH A 631 SITE 1 AC6 5 ASN A 87 GLY A 117 GLU A 118 GLU A 119 SITE 2 AC6 5 SER A 339 SITE 1 AC7 8 TRP A 265 THR A 267 GLY A 268 LYS A 269 SITE 2 AC7 8 ASN A 272 GLN A 278 HOH A 616 HOH A 622 SITE 1 AC8 5 GLU A 47 LYS A 48 LYS A 49 HIS A 60 SITE 2 AC8 5 HOH A 668 SITE 1 AC9 5 ASP A 98 HIS A 135 ILE A 257 HIS A 306 SITE 2 AC9 5 CU A 502 CRYST1 96.259 96.259 96.259 90.00 90.00 90.00 P 21 3 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 0.010389 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010389 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010389 0.00000