HEADER OXIDOREDUCTASE 20-MAR-17 5NGX TITLE THE 1.06 A RESOLUTION STRUCTURE OF THE L16G MUTANT OF FERRIC TITLE 2 CYTOCHROME C PRIME FROM ALCALIGENES XYLOSOXIDANS, COMPLEXED WITH TITLE 3 NITRITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C'; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ALCALIGENES XYLOSOXYDANS XYLOSOXYDANS; SOURCE 3 ORGANISM_TAXID: 85698; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NITRITE, CYTOCHROME, HOMODIMER, OXIDOREDUCTASE, FERRIC, HEME EXPDTA X-RAY DIFFRACTION AUTHOR R.STRANGE,M.HOUGH,D.KEKELLI,S.HORRELL,T.MORENO CHICANO REVDAT 3 17-JAN-24 5NGX 1 REMARK REVDAT 2 27-NOV-19 5NGX 1 JRNL SEQRES ATOM REVDAT 1 16-MAY-18 5NGX 0 JRNL AUTH Z.N.NILSSON,B.L.MANDELLA,K.SEN,D.KEKILLI,M.A.HOUGH, JRNL AUTH 2 P.MOENNE-LOCCOZ,R.W.STRANGE,C.R.ANDREW JRNL TITL DISTINGUISHING NITRO VS NITRITO COORDINATION IN CYTOCHROME JRNL TITL 2 C' USING VIBRATIONAL SPECTROSCOPY AND DENSITY FUNCTIONAL JRNL TITL 3 THEORY. JRNL REF INORG.CHEM. V. 56 13205 2017 JRNL REFN ISSN 0020-1669 JRNL PMID 29053273 JRNL DOI 10.1021/ACS.INORGCHEM.7B01945 REMARK 2 REMARK 2 RESOLUTION. 1.06 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) : 1.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.24 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 66609 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) : 0.178 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3506 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) : 1.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.09 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4919 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.05 REMARK 3 BIN R VALUE (WORKING SET) : 0.3520 REMARK 3 BIN FREE R VALUE SET COUNT : 271 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 945 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.53 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.64000 REMARK 3 B22 (A**2) : 0.64000 REMARK 3 B33 (A**2) : -2.08000 REMARK 3 B12 (A**2) : 0.32000 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): 0.030 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.024 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.121 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1127 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1005 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1549 ; 2.179 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2342 ; 1.457 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 147 ; 5.513 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 48 ;34.577 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 170 ;11.838 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;14.306 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 153 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1326 ; 0.017 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 235 ; 0.011 ; 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): 556 ; 1.050 ; 1.211 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 555 ; 1.044 ; 1.206 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 703 ; 1.384 ; 1.826 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 704 ; 1.384 ; 1.830 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 571 ; 1.490 ; 1.356 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 571 ; 1.485 ; 1.355 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 843 ; 1.733 ; 1.955 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1398 ; 3.653 ;16.045 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1398 ; 3.651 ;16.033 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2131 ; 5.736 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 155 ;24.608 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2166 ; 8.705 ; 5.000 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5NGX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200004126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-17 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9282 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 0.5.179-GFD2BADA8-DIALS-1.4 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70168 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.060 REMARK 200 RESOLUTION RANGE LOW (A) : 45.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: REFMAC 5.8.0158 REMARK 200 STARTING MODEL: 2YL7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM SODIUM NITRITE, 2.2 M AMMONIUM REMARK 280 SULPHATE AND 0.1 M HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 122.14000 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 61.07000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 91.60500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 30.53500 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 152.67500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 122.14000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 61.07000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 30.53500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 91.60500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 152.67500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 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 465 LIES ON A SPECIAL POSITION. 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 CYS A 116 CA - CB - SG ANGL. DEV. = 6.7 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 THR A 63 30.61 -96.58 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 A 511 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A 512 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH A 513 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A 514 DISTANCE = 8.45 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 HEC A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 120 NE2 REMARK 620 2 HEC A 201 NA 90.7 REMARK 620 3 HEC A 201 NB 88.8 89.7 REMARK 620 4 HEC A 201 NC 89.3 179.8 90.5 REMARK 620 5 HEC A 201 ND 91.4 90.1 179.7 89.7 REMARK 620 6 NO2 A 202 N 176.7 92.1 92.9 87.8 86.9 REMARK 620 7 HOH A 382 O 176.6 91.8 89.0 88.1 90.8 3.9 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEC A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO2 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 203 DBREF 5NGX A 1 126 UNP P00138 CYCP_ALCXX 1 126 SEQADV 5NGX GLY A 16 UNP P00138 LEU 16 CONFLICT SEQRES 1 A 126 PCA PHE ALA LYS PRO GLU ASP ALA VAL LYS TYR ARG GLN SEQRES 2 A 126 SER ALA GLY THR LEU MET ALA SER HIS PHE GLY ARG MET SEQRES 3 A 126 THR PRO VAL VAL LYS GLY GLN ALA PRO TYR ASP ALA ALA SEQRES 4 A 126 GLN ILE LYS ALA ASN VAL GLU VAL LEU LYS THR LEU SER SEQRES 5 A 126 ALA LEU PRO TRP ALA ALA PHE GLY PRO GLY THR GLU GLY SEQRES 6 A 126 GLY ASP ALA ARG PRO GLU ILE TRP SER ASP ALA ALA SER SEQRES 7 A 126 PHE LYS GLN LYS GLN GLN ALA PHE GLN ASP ASN ILE VAL SEQRES 8 A 126 LYS LEU SER ALA ALA ALA ASP ALA GLY ASP LEU ASP LYS SEQRES 9 A 126 LEU ARG ALA ALA PHE GLY ASP VAL GLY ALA SER CYS LYS SEQRES 10 A 126 ALA CYS HIS ASP ALA TYR ARG LYS LYS MODRES 5NGX PCA A 1 GLN MODIFIED RESIDUE HET PCA A 1 8 HET HEC A 201 43 HET NO2 A 202 3 HET GOL A 203 6 HETNAM PCA PYROGLUTAMIC ACID HETNAM HEC HEME C HETNAM NO2 NITRITE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 PCA C5 H7 N O3 FORMUL 2 HEC C34 H34 FE N4 O4 FORMUL 3 NO2 N O2 1- FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *214(H2 O) HELIX 1 AA1 LYS A 4 ARG A 25 1 22 HELIX 2 AA2 MET A 26 LYS A 31 1 6 HELIX 3 AA3 ASP A 37 ALA A 53 1 17 HELIX 4 AA4 LEU A 54 PHE A 59 5 6 HELIX 5 AA5 PRO A 70 ASP A 75 1 6 HELIX 6 AA6 ASP A 75 GLY A 100 1 26 HELIX 7 AA7 ASP A 101 ARG A 124 1 24 LINK C PCA A 1 N PHE A 2 1555 1555 1.35 LINK SG CYS A 116 CAB HEC A 201 1555 1555 1.99 LINK SG CYS A 119 CAC HEC A 201 1555 1555 1.94 LINK NE2 HIS A 120 FE HEC A 201 1555 1555 2.04 LINK FE HEC A 201 N BNO2 A 202 1555 1555 2.11 LINK FE HEC A 201 O AHOH A 382 1555 1555 2.07 SITE 1 AC1 23 ARG A 12 GLN A 13 GLY A 16 ALA A 20 SITE 2 AC1 23 TRP A 56 PHE A 59 GLY A 65 ASP A 67 SITE 3 AC1 23 ALA A 68 ILE A 72 GLN A 83 PHE A 86 SITE 4 AC1 23 CYS A 116 CYS A 119 HIS A 120 TYR A 123 SITE 5 AC1 23 ARG A 124 NO2 A 202 HOH A 322 HOH A 332 SITE 6 AC1 23 HOH A 333 HOH A 358 HOH A 382 SITE 1 AC2 7 GLY A 16 MET A 19 PRO A 55 TRP A 56 SITE 2 AC2 7 HEC A 201 HOH A 314 HOH A 382 SITE 1 AC3 5 ARG A 69 LYS A 125 LYS A 126 HOH A 310 SITE 2 AC3 5 HOH A 352 CRYST1 53.910 53.910 183.210 90.00 90.00 120.00 P 65 2 2 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 0.018549 0.010710 0.000000 0.00000 SCALE2 0.000000 0.021419 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005458 0.00000 HETATM 1 N PCA A 1 30.296 -7.305 2.093 1.00 10.81 N ANISOU 1 N PCA A 1 908 1064 2135 203 217 206 N HETATM 2 CA PCA A 1 30.944 -6.820 3.308 1.00 12.01 C ANISOU 2 CA PCA A 1 1300 1128 2134 226 128 35 C HETATM 3 CB PCA A 1 29.839 -7.017 4.367 1.00 12.33 C ANISOU 3 CB PCA A 1 1457 1279 1947 183 85 146 C HETATM 4 CG PCA A 1 29.000 -8.158 3.796 1.00 12.27 C ANISOU 4 CG PCA A 1 1327 1064 2269 261 235 114 C HETATM 5 CD PCA A 1 29.291 -8.148 2.309 1.00 11.35 C ANISOU 5 CD PCA A 1 1041 982 2289 159 26 336 C HETATM 6 OE PCA A 1 28.648 -8.800 1.471 1.00 11.94 O ANISOU 6 OE PCA A 1 1083 1093 2358 31 11 423 O HETATM 7 C PCA A 1 32.176 -7.610 3.689 1.00 11.41 C ANISOU 7 C PCA A 1 1107 1131 2098 95 168 1 C HETATM 8 O PCA A 1 32.696 -7.401 4.786 1.00 14.55 O ANISOU 8 O PCA A 1 1330 1891 2306 -9 64 -211 O