HEADER LIPID BINDING PROTEIN 27-SEP-10 3OZU TITLE THE CRYSTAL STRUCTURE OF FLAVOHEMOGLOBIN FROM R. EUTROPHUS IN COMPLEX TITLE 2 WITH MICONAZOLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLAVOHEMOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HEMOGLOBIN-LIKE PROTEIN, FLAVOHEMOGLOBIN, FHP, NITRIC OXIDE COMPND 5 DIOXYGENASE, NO OXYGENASE, NOD; COMPND 6 EC: 1.14.12.17; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RALSTONIA EUTROPHA; SOURCE 3 ORGANISM_COMMON: CUPRIAVIDUS NECATOR; SOURCE 4 ORGANISM_TAXID: 381666; SOURCE 5 STRAIN: H16; SOURCE 6 GENE: HMP, FHP, PHG200; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS GLOBIN FOLD, ANTIPARALLEL BETA-BARREL, ALPHA/BETA FOLD, HEM-, FAD-, KEYWDS 2 NAD- BINDING DOMAINS, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.EL HAMMI,E.WARKENTIN,U.DEMMER,U.ERMLER,L.BACIOU REVDAT 2 06-SEP-23 3OZU 1 REMARK LINK REVDAT 1 16-MAR-11 3OZU 0 JRNL AUTH E.EL HAMMI,E.WARKENTIN,U.DEMMER,F.LIMAM,N.M.MARZOUKI, JRNL AUTH 2 U.ERMLER,L.BACIOU JRNL TITL STRUCTURE OF RALSTONIA EUTROPHA FLAVOHEMOGLOBIN IN COMPLEX JRNL TITL 2 WITH THREE ANTIBIOTIC AZOLE COMPOUNDS. JRNL REF BIOCHEMISTRY V. 50 1255 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21210640 JRNL DOI 10.1021/BI101650Q REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0046 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 35692 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1892 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2414 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 128 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3157 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 126 REMARK 3 SOLVENT ATOMS : 336 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.08000 REMARK 3 B22 (A**2) : -1.97000 REMARK 3 B33 (A**2) : 1.92000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.153 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.171 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3414 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4671 ; 1.980 ; 2.031 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 412 ; 6.114 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 157 ;39.313 ;24.395 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 543 ;18.117 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;18.600 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 489 ; 0.137 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2648 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 113 REMARK 3 ORIGIN FOR THE GROUP (A): 10.2674 28.6072 7.9926 REMARK 3 T TENSOR REMARK 3 T11: 0.0833 T22: 0.1183 REMARK 3 T33: 0.0439 T12: -0.0091 REMARK 3 T13: -0.0334 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 2.7706 L22: 1.4537 REMARK 3 L33: 2.3184 L12: -0.1794 REMARK 3 L13: -0.6793 L23: 0.5591 REMARK 3 S TENSOR REMARK 3 S11: 0.0204 S12: -0.3790 S13: -0.0735 REMARK 3 S21: 0.2807 S22: -0.0250 S23: -0.1250 REMARK 3 S31: 0.0513 S32: 0.0999 S33: 0.0046 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 114 A 148 REMARK 3 ORIGIN FOR THE GROUP (A): 6.8589 36.0053 -0.5468 REMARK 3 T TENSOR REMARK 3 T11: 0.0226 T22: 0.0149 REMARK 3 T33: 0.0608 T12: 0.0169 REMARK 3 T13: -0.0170 T23: -0.0156 REMARK 3 L TENSOR REMARK 3 L11: 7.9202 L22: 1.9818 REMARK 3 L33: 13.0059 L12: 0.3840 REMARK 3 L13: -7.7439 L23: -1.2994 REMARK 3 S TENSOR REMARK 3 S11: 0.1593 S12: 0.0774 S13: 0.3525 REMARK 3 S21: 0.0210 S22: 0.0535 S23: 0.1370 REMARK 3 S31: -0.1727 S32: -0.1846 S33: -0.2128 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 149 A 258 REMARK 3 ORIGIN FOR THE GROUP (A): 31.6289 27.7058 -8.8395 REMARK 3 T TENSOR REMARK 3 T11: 0.0420 T22: 0.1042 REMARK 3 T33: 0.0988 T12: 0.0196 REMARK 3 T13: -0.0247 T23: -0.0251 REMARK 3 L TENSOR REMARK 3 L11: 2.6162 L22: 3.2425 REMARK 3 L33: 2.3330 L12: -0.2602 REMARK 3 L13: -0.6253 L23: 0.1850 REMARK 3 S TENSOR REMARK 3 S11: 0.0358 S12: 0.1426 S13: -0.1036 REMARK 3 S21: -0.0335 S22: -0.0420 S23: -0.4347 REMARK 3 S31: -0.0013 S32: 0.2885 S33: 0.0062 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 259 A 411 REMARK 3 ORIGIN FOR THE GROUP (A): 34.0425 44.7696 8.9668 REMARK 3 T TENSOR REMARK 3 T11: 0.2399 T22: 0.2193 REMARK 3 T33: 0.2450 T12: -0.0306 REMARK 3 T13: -0.0757 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.9913 L22: 3.3361 REMARK 3 L33: 0.7281 L12: 1.0451 REMARK 3 L13: 0.1225 L23: 0.4573 REMARK 3 S TENSOR REMARK 3 S11: 0.1645 S12: -0.2307 S13: 0.0122 REMARK 3 S21: 0.3918 S22: -0.1145 S23: -0.5450 REMARK 3 S31: 0.0713 S32: 0.2220 S33: -0.0500 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3OZU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1000061779. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9918 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37439 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.57000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1CQX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULPHATE, 25% (W/V) REMARK 280 GLYCEROL AND 0.1M TRIS, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 60.66950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.63900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.66950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 52.63900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 446 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 479 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 710 LIES ON A SPECIAL POSITION. 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 A 711 O HOH A 725 2.06 REMARK 500 O HOH A 472 O HOH A 561 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 139 CB GLU A 139 CG -0.129 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 LYS A 91 CD - CE - NZ ANGL. DEV. = -20.6 DEGREES REMARK 500 ASP A 178 CB - CG - OD1 ANGL. DEV. = 5.4 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 ASP A 212 -145.29 65.71 REMARK 500 PRO A 230 -35.34 -35.40 REMARK 500 ASN A 304 -173.34 175.55 REMARK 500 VAL A 349 130.87 -38.04 REMARK 500 ASP A 399 99.24 -160.16 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 HEM A 404 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 85 NE2 REMARK 620 2 HEM A 404 NA 92.6 REMARK 620 3 HEM A 404 NB 90.7 88.3 REMARK 620 4 HEM A 404 NC 86.9 179.3 91.2 REMARK 620 5 HEM A 404 ND 90.7 93.3 177.8 87.2 REMARK 620 6 X89 A 411 N3 173.5 93.9 90.1 86.6 88.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE X89 A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3OZV RELATED DB: PDB REMARK 900 RELATED ID: 3OZW RELATED DB: PDB DBREF 3OZU A 1 403 UNP P39662 HMP_RALEH 1 403 SEQRES 1 A 403 MET LEU THR GLN LYS THR LYS ASP ILE VAL LYS ALA THR SEQRES 2 A 403 ALA PRO VAL LEU ALA GLU HIS GLY TYR ASP ILE ILE LYS SEQRES 3 A 403 CYS PHE TYR GLN ARG MET PHE GLU ALA HIS PRO GLU LEU SEQRES 4 A 403 LYS ASN VAL PHE ASN MET ALA HIS GLN GLU GLN GLY GLN SEQRES 5 A 403 GLN GLN GLN ALA LEU ALA ARG ALA VAL TYR ALA TYR ALA SEQRES 6 A 403 GLU ASN ILE GLU ASP PRO ASN SER LEU MET ALA VAL LEU SEQRES 7 A 403 LYS ASN ILE ALA ASN LYS HIS ALA SER LEU GLY VAL LYS SEQRES 8 A 403 PRO GLU GLN TYR PRO ILE VAL GLY GLU HIS LEU LEU ALA SEQRES 9 A 403 ALA ILE LYS GLU VAL LEU GLY ASN ALA ALA THR ASP ASP SEQRES 10 A 403 ILE ILE SER ALA TRP ALA GLN ALA TYR GLY ASN LEU ALA SEQRES 11 A 403 ASP VAL LEU MET GLY MET GLU SER GLU LEU TYR GLU ARG SEQRES 12 A 403 SER ALA GLU GLN PRO GLY GLY TRP LYS GLY TRP ARG THR SEQRES 13 A 403 PHE VAL ILE ARG GLU LYS ARG PRO GLU SER ASP VAL ILE SEQRES 14 A 403 THR SER PHE ILE LEU GLU PRO ALA ASP GLY GLY PRO VAL SEQRES 15 A 403 VAL ASN PHE GLU PRO GLY GLN TYR THR SER VAL ALA ILE SEQRES 16 A 403 ASP VAL PRO ALA LEU GLY LEU GLN GLN ILE ARG GLN TYR SEQRES 17 A 403 SER LEU SER ASP MET PRO ASN GLY ARG SER TYR ARG ILE SEQRES 18 A 403 SER VAL LYS ARG GLU GLY GLY GLY PRO GLN PRO PRO GLY SEQRES 19 A 403 TYR VAL SER ASN LEU LEU HIS ASP HIS VAL ASN VAL GLY SEQRES 20 A 403 ASP GLN VAL LYS LEU ALA ALA PRO TYR GLY SER PHE HIS SEQRES 21 A 403 ILE ASP VAL ASP ALA LYS THR PRO ILE VAL LEU ILE SER SEQRES 22 A 403 GLY GLY VAL GLY LEU THR PRO MET VAL SER MET LEU LYS SEQRES 23 A 403 VAL ALA LEU GLN ALA PRO PRO ARG GLN VAL VAL PHE VAL SEQRES 24 A 403 HIS GLY ALA ARG ASN SER ALA VAL HIS ALA MET ARG ASP SEQRES 25 A 403 ARG LEU ARG GLU ALA ALA LYS THR TYR GLU ASN LEU ASP SEQRES 26 A 403 LEU PHE VAL PHE TYR ASP GLN PRO LEU PRO GLU ASP VAL SEQRES 27 A 403 GLN GLY ARG ASP TYR ASP TYR PRO GLY LEU VAL ASP VAL SEQRES 28 A 403 LYS GLN ILE GLU LYS SER ILE LEU LEU PRO ASP ALA ASP SEQRES 29 A 403 TYR TYR ILE CYS GLY PRO ILE PRO PHE MET ARG MET GLN SEQRES 30 A 403 HIS ASP ALA LEU LYS ASN LEU GLY ILE HIS GLU ALA ARG SEQRES 31 A 403 ILE HIS TYR GLU VAL PHE GLY PRO ASP LEU PHE ALA GLU HET HEM A 404 43 HET FAD A 405 53 HET X89 A 411 25 HET PO4 A 406 5 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM X89 1-[(2R)-2-[(2,4-DICHLOROBENZYL)OXY]-2-(2,4- HETNAM 2 X89 DICHLOROPHENYL)ETHYL]-1H-IMIDAZOLE HETNAM PO4 PHOSPHATE ION HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 FAD C27 H33 N9 O15 P2 FORMUL 4 X89 C18 H14 CL4 N2 O FORMUL 5 PO4 O4 P 3- FORMUL 6 HOH *336(H2 O) HELIX 1 1 THR A 3 HIS A 20 1 18 HELIX 2 2 HIS A 20 HIS A 36 1 17 HELIX 3 3 PRO A 37 VAL A 42 5 6 HELIX 4 4 GLU A 49 ASN A 67 1 19 HELIX 5 5 ASP A 70 GLY A 89 1 20 HELIX 6 6 LYS A 91 GLU A 93 5 3 HELIX 7 7 GLN A 94 GLY A 111 1 18 HELIX 8 8 ASN A 112 ALA A 114 5 3 HELIX 9 9 THR A 115 GLN A 147 1 33 HELIX 10 10 GLY A 234 VAL A 244 1 11 HELIX 11 11 GLY A 277 LEU A 289 1 13 HELIX 12 12 HIS A 308 TYR A 321 1 14 HELIX 13 13 ASP A 350 GLN A 353 5 4 HELIX 14 14 ILE A 354 LEU A 359 1 6 HELIX 15 15 PRO A 370 ASN A 383 1 14 HELIX 16 16 HIS A 387 ALA A 389 5 3 SHEET 1 A 6 LEU A 202 SER A 209 0 SHEET 2 A 6 TYR A 190 VAL A 197 -1 N VAL A 197 O LEU A 202 SHEET 3 A 6 GLN A 249 LEU A 252 -1 O LYS A 251 N ALA A 194 SHEET 4 A 6 ARG A 155 PRO A 164 -1 N PHE A 157 O VAL A 250 SHEET 5 A 6 ILE A 169 PRO A 176 -1 O ILE A 173 N ARG A 160 SHEET 6 A 6 TYR A 219 LYS A 224 -1 O TYR A 219 N LEU A 174 SHEET 1 B 6 TYR A 345 PRO A 346 0 SHEET 2 B 6 LEU A 324 TYR A 330 1 N VAL A 328 O TYR A 345 SHEET 3 B 6 VAL A 296 ALA A 302 1 N HIS A 300 O PHE A 327 SHEET 4 B 6 ILE A 269 SER A 273 1 N SER A 273 O GLY A 301 SHEET 5 B 6 ASP A 364 CYS A 368 1 O TYR A 366 N ILE A 272 SHEET 6 B 6 ILE A 391 TYR A 393 1 O HIS A 392 N ILE A 367 LINK NE2 HIS A 85 FE HEM A 404 1555 1555 2.02 LINK FE HEM A 404 N3 X89 A 411 1555 1555 1.97 CISPEP 1 THR A 279 PRO A 280 0 11.74 CISPEP 2 ALA A 291 PRO A 292 0 -3.77 SITE 1 AC1 18 VAL A 42 PHE A 43 ASN A 44 ASN A 80 SITE 2 AC1 18 ILE A 81 LYS A 84 HIS A 85 LEU A 88 SITE 3 AC1 18 GLN A 94 TYR A 95 VAL A 98 TYR A 126 SITE 4 AC1 18 LEU A 129 ALA A 130 PO4 A 406 X89 A 411 SITE 5 AC1 18 HOH A 533 HOH A 573 SITE 1 AC2 29 ALA A 46 HIS A 47 TYR A 190 ARG A 206 SITE 2 AC2 29 GLN A 207 TYR A 208 SER A 209 SER A 222 SITE 3 AC2 29 VAL A 223 LYS A 224 GLU A 226 GLY A 227 SITE 4 AC2 29 GLN A 231 PRO A 232 GLY A 234 TYR A 235 SITE 5 AC2 29 VAL A 236 SER A 237 GLU A 394 VAL A 395 SITE 6 AC2 29 GLY A 397 PRO A 398 HOH A 438 HOH A 449 SITE 7 AC2 29 HOH A 456 HOH A 476 HOH A 558 HOH A 668 SITE 8 AC2 29 HOH A 700 SITE 1 AC3 11 ILE A 25 PHE A 28 PHE A 43 ALA A 56 SITE 2 AC3 11 VAL A 61 LEU A 102 ALA A 125 TYR A 126 SITE 3 AC3 11 HEM A 404 PO4 A 406 HOH A 561 SITE 1 AC4 6 ALA A 60 VAL A 61 LEU A 129 HEM A 404 SITE 2 AC4 6 X89 A 411 HOH A 583 CRYST1 121.339 105.278 46.445 90.00 101.90 90.00 C 1 2 1 4 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 0.008241 0.000000 0.001737 0.00000 SCALE2 0.000000 0.009499 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022004 0.00000