HEADER OXIDOREDUCTASE 29-AUG-11 3TKT TITLE CRYSTAL STRUCTURE OF CYP108D1 FROM NOVOSPHINGOBIUM AROMATICIVORANS TITLE 2 DSM12444 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS; SOURCE 3 ORGANISM_TAXID: 279238; SOURCE 4 STRAIN: DSM 12444; SOURCE 5 GENE: SARO_3162; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS CYTOCHROME P450 FOLD, AROMATIC HYDROCARBON BINDING OF P450 ENZYME, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.YANG,S.G.BELL,H.WANG,W.ZHOU,M.BARTLAM,L.-L.WONG,Z.RAO REVDAT 3 01-NOV-23 3TKT 1 REMARK SEQADV REVDAT 2 02-MAY-12 3TKT 1 JRNL REVDAT 1 29-FEB-12 3TKT 0 JRNL AUTH S.G.BELL,W.YANG,J.A.YORKE,W.ZHOU,H.WANG,J.HARMER,R.COPLEY, JRNL AUTH 2 A.ZHANG,R.ZHOU,M.BARTLAM,Z.RAO,L.-L.WONG JRNL TITL STRUCTURE AND FUNCTION OF CYP108D1 FROM NOVOSPHINGOBIUM JRNL TITL 2 AROMATICIVORANS DSM12444: AN AROMATIC HYDROCARBON-BINDING JRNL TITL 3 P450 ENZYME JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 68 277 2012 JRNL REFN ISSN 0907-4449 JRNL PMID 22349230 JRNL DOI 10.1107/S090744491200145X REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0044 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 24989 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1337 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1819 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.1970 REMARK 3 BIN FREE R VALUE SET COUNT : 83 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3164 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 267 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.28000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.43000 REMARK 3 B12 (A**2) : -0.14000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.196 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.226 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3287 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4480 ; 1.743 ; 2.007 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 409 ; 6.145 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;34.433 ;23.427 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 526 ;18.722 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;22.743 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 488 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2533 ; 0.007 ; 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): 2055 ; 0.753 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3299 ; 1.425 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1232 ; 2.613 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1181 ; 4.154 ; 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 : 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 3TKT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000067601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26332 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 0.40100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY: 1CPT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LITHIUM SULFATE, 0.1M TRIS, 27% REMARK 280 PEG 4000, PH 8.3, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 46.98950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 27.12940 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 99.78867 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 46.98950 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 27.12940 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 99.78867 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 46.98950 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 27.12940 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 99.78867 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 46.98950 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 27.12940 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 99.78867 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 46.98950 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 27.12940 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 99.78867 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 46.98950 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 27.12940 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 99.78867 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 54.25880 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 199.57733 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 54.25880 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 199.57733 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 54.25880 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 199.57733 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 54.25880 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 199.57733 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 54.25880 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 199.57733 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 54.25880 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 199.57733 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 531 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 618 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 648 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 691 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 GLN A 193 REMARK 465 ASP A 194 REMARK 465 GLU A 195 REMARK 465 ASP A 196 REMARK 465 MET A 197 REMARK 465 ASN A 198 REMARK 465 LYS A 199 REMARK 465 SER A 200 REMARK 465 GLY A 201 REMARK 465 LEU A 202 REMARK 465 LYS A 203 REMARK 465 ASP A 204 REMARK 465 LEU A 205 REMARK 465 PRO A 206 REMARK 465 PRO A 207 REMARK 465 GLU A 208 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 NE ARG A 358 O HOH A 689 1.95 REMARK 500 SG CYS A 330 O HOH A 433 2.06 REMARK 500 NH1 ARG A 358 O HOH A 549 2.07 REMARK 500 ND2 ASN A 127 O HOH A 664 2.12 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 ARG A 136 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 136 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 234 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 234 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 390 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 390 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 411 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 411 NE - CZ - NH2 ANGL. DEV. = -4.3 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 TRP A 24 -71.79 72.88 REMARK 500 ALA A 38 77.92 -162.48 REMARK 500 SER A 78 134.31 -39.56 REMARK 500 GLN A 188 -61.02 -109.17 REMARK 500 PHE A 190 -161.74 -107.03 REMARK 500 HIS A 271 -79.39 -90.51 REMARK 500 THR A 314 70.25 42.30 REMARK 500 ALA A 336 130.51 -39.01 REMARK 500 PHE A 416 -80.75 -91.69 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 431 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 379 SG REMARK 620 2 HEM A 431 NA 104.5 REMARK 620 3 HEM A 431 NB 92.3 87.2 REMARK 620 4 HEM A 431 NC 91.8 163.6 90.4 REMARK 620 5 HEM A 431 ND 104.7 90.2 162.9 87.3 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 HEM A 431 DBREF 3TKT A 1 430 UNP Q2G3H6 Q2G3H6_NOVAD 1 430 SEQADV 3TKT MET A -19 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT GLY A -18 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT SER A -17 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT SER A -16 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -15 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -14 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -13 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -12 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -11 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A -10 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT SER A -9 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT SER A -8 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT GLY A -7 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT LEU A -6 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT VAL A -5 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT PRO A -4 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT ARG A -3 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT GLY A -2 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT SER A -1 UNP Q2G3H6 EXPRESSION TAG SEQADV 3TKT HIS A 0 UNP Q2G3H6 EXPRESSION TAG SEQRES 1 A 450 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 450 LEU VAL PRO ARG GLY SER HIS MET ASP SER ILE PRO MET SEQRES 3 A 450 VAL PRO ALA GLU VAL GLY ARG ALA VAL ILE ASP PRO LYS SEQRES 4 A 450 SER TYR GLY THR TRP GLU PRO LEU LEU ASP ARG PHE ASP SEQRES 5 A 450 ALA LEU ARG ALA GLU ALA PRO VAL ALA LYS VAL VAL ALA SEQRES 6 A 450 PRO ASP ASP GLU HIS GLU PRO PHE TRP LEU VAL SER SER SEQRES 7 A 450 PHE ASP GLY VAL MET LYS ALA SER LYS ASP ASN ALA THR SEQRES 8 A 450 PHE LEU ASN ASN PRO LYS SER THR VAL PHE THR LEU ARG SEQRES 9 A 450 VAL GLY GLU MET MET ALA LYS ALA ILE THR GLY GLY SER SEQRES 10 A 450 PRO HIS LEU VAL GLU SER LEU VAL GLN MET ASP ALA PRO SEQRES 11 A 450 LYS HIS PRO LYS LEU ARG ARG LEU THR GLN ASP TRP PHE SEQRES 12 A 450 MET PRO LYS ASN LEU ALA ARG LEU ASP GLY GLU ILE ARG SEQRES 13 A 450 LYS ILE ALA ASN GLU ALA ILE ASP ARG MET LEU GLY ALA SEQRES 14 A 450 GLY GLU GLU GLY ASP PHE MET ALA LEU VAL ALA ALA PRO SEQRES 15 A 450 TYR PRO LEU HIS VAL VAL MET GLN ILE LEU GLY VAL PRO SEQRES 16 A 450 PRO GLU ASP GLU PRO LYS MET LEU PHE LEU THR GLN GLN SEQRES 17 A 450 MET PHE GLY GLY GLN ASP GLU ASP MET ASN LYS SER GLY SEQRES 18 A 450 LEU LYS ASP LEU PRO PRO GLU GLN ILE SER GLN ILE VAL SEQRES 19 A 450 ALA GLY ALA VAL ALA GLU PHE GLU ARG TYR PHE ALA GLY SEQRES 20 A 450 LEU ALA ALA GLU ARG ARG ARG ASN PRO THR ASP ASP VAL SEQRES 21 A 450 ALA THR VAL ILE ALA ASN ALA VAL VAL ASP GLY GLU PRO SEQRES 22 A 450 MET SER ASP ARG ASP THR ALA GLY TYR TYR ILE ILE THR SEQRES 23 A 450 ALA SER ALA GLY HIS ASP THR THR SER ALA SER SER ALA SEQRES 24 A 450 GLY ALA ALA LEU ALA LEU ALA ARG ASP PRO ASP LEU PHE SEQRES 25 A 450 ALA ARG VAL LYS ALA ASP ARG ASN LEU LEU PRO GLY ILE SEQRES 26 A 450 VAL GLU GLU ALA ILE ARG TRP THR THR PRO VAL GLN HIS SEQRES 27 A 450 PHE MET ARG THR ALA ALA THR ASP THR GLU LEU CYS GLY SEQRES 28 A 450 GLN LYS ILE ALA ALA GLY ASP TRP LEU MET LEU ASN TYR SEQRES 29 A 450 VAL ALA ALA ASN HIS ASP PRO ALA GLN PHE PRO GLU PRO SEQRES 30 A 450 ARG LYS PHE ASP PRO THR ARG PRO ALA ASN ARG HIS LEU SEQRES 31 A 450 ALA PHE GLY ALA GLY SER HIS GLN CYS LEU GLY LEU HIS SEQRES 32 A 450 LEU ALA ARG LEU GLU MET ARG VAL LEU LEU ASP VAL LEU SEQRES 33 A 450 LEU ASP ARG VAL ASP SER LEU GLU LEU ALA GLY GLU PRO SEQRES 34 A 450 LYS ARG VAL ASN SER THR PHE VAL GLY GLY PHE LYS SER SEQRES 35 A 450 LEU PRO MET ARG TRP LYS ALA ALA HET HEM A 431 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 HOH *267(H2 O) HELIX 1 1 PRO A 8 ILE A 16 1 9 HELIX 2 2 ASP A 17 TRP A 24 1 8 HELIX 3 3 TRP A 24 ALA A 38 1 15 HELIX 4 4 SER A 58 ASP A 68 1 11 HELIX 5 5 LEU A 83 GLY A 95 1 13 HELIX 6 6 SER A 103 MET A 107 5 5 HELIX 7 7 PRO A 110 ASP A 121 1 12 HELIX 8 8 MET A 124 ALA A 129 1 6 HELIX 9 9 LEU A 131 ALA A 149 1 19 HELIX 10 10 PHE A 155 VAL A 159 1 5 HELIX 11 11 ALA A 161 LEU A 172 1 12 HELIX 12 12 PRO A 175 GLU A 177 5 3 HELIX 13 13 ASP A 178 GLN A 188 1 11 HELIX 14 14 ILE A 210 ASN A 235 1 26 HELIX 15 15 ASP A 239 ASN A 246 1 8 HELIX 16 16 SER A 255 HIS A 271 1 17 HELIX 17 17 HIS A 271 ASP A 288 1 18 HELIX 18 18 ASP A 288 ASP A 298 1 11 HELIX 19 19 LEU A 301 THR A 314 1 14 HELIX 20 20 TYR A 344 HIS A 349 1 6 HELIX 21 21 GLY A 381 ARG A 399 1 19 SHEET 1 A 5 VAL A 40 VAL A 43 0 SHEET 2 A 5 PHE A 53 VAL A 56 -1 O PHE A 53 N VAL A 43 SHEET 3 A 5 TRP A 339 ASN A 343 1 O MET A 341 N TRP A 54 SHEET 4 A 5 HIS A 318 ALA A 323 -1 N PHE A 319 O LEU A 342 SHEET 5 A 5 PHE A 72 LEU A 73 -1 N LEU A 73 O THR A 322 SHEET 1 B 3 GLU A 152 ASP A 154 0 SHEET 2 B 3 PRO A 424 ALA A 429 -1 O MET A 425 N GLY A 153 SHEET 3 B 3 VAL A 400 LEU A 405 -1 N GLU A 404 O ARG A 426 SHEET 1 C 2 VAL A 248 VAL A 249 0 SHEET 2 C 2 GLU A 252 PRO A 253 -1 O GLU A 252 N VAL A 249 SHEET 1 D 2 THR A 327 LEU A 329 0 SHEET 2 D 2 GLN A 332 ILE A 334 -1 O ILE A 334 N THR A 327 SHEET 1 E 2 LYS A 410 ARG A 411 0 SHEET 2 E 2 PHE A 420 SER A 422 -1 O SER A 422 N LYS A 410 LINK SG CYS A 379 FE HEM A 431 1555 1555 2.29 CISPEP 1 ALA A 109 PRO A 110 0 3.00 SITE 1 AC1 25 LEU A 104 VAL A 105 HIS A 112 ARG A 116 SITE 2 AC1 25 THR A 266 ALA A 269 GLY A 270 THR A 273 SITE 3 AC1 25 THR A 274 SER A 277 VAL A 316 PHE A 319 SITE 4 AC1 25 ARG A 321 ALA A 371 PHE A 372 GLY A 373 SITE 5 AC1 25 ALA A 374 HIS A 377 CYS A 379 GLY A 381 SITE 6 AC1 25 ALA A 385 HOH A 459 HOH A 477 HOH A 507 SITE 7 AC1 25 HOH A 697 CRYST1 93.979 93.979 299.366 90.00 90.00 120.00 H 3 2 18 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 0.010641 0.006143 0.000000 0.00000 SCALE2 0.000000 0.012287 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003340 0.00000