HEADER OXIDOREDUCTASE 08-JUL-10 3NV6 TITLE CRYSTAL STRUCTURE OF CAMPHOR-BOUND CYP101D2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYP101D2; COMPND 5 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_1478; 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, OXIDIZING CAMPHOR, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.YANG,S.G.BELL,H.WANG,W.H.ZHOU,M.BARTLAM,L.L.WONG,Z.RAO REVDAT 3 01-NOV-23 3NV6 1 REMARK SEQADV LINK REVDAT 2 26-FEB-14 3NV6 1 JRNL VERSN REVDAT 1 03-NOV-10 3NV6 0 JRNL AUTH W.YANG,S.G.BELL,H.WANG,W.ZHOU,M.BARTLAM,L.L.WONG,Z.RAO JRNL TITL THE STRUCTURE OF CYP101D2 UNVEILS A POTENTIAL PATH FOR JRNL TITL 2 SUBSTRATE ENTRY INTO THE ACTIVE SITE JRNL REF BIOCHEM.J. V. 433 85 2011 JRNL REFN ISSN 0264-6021 JRNL PMID 20950270 JRNL DOI 10.1042/BJ20101017 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) : 47.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 25819 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1367 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) : 1915 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 107 REMARK 3 BIN FREE R VALUE : 0.3280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3195 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 305 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : 0.28000 REMARK 3 B12 (A**2) : -0.09000 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): 0.212 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.148 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.878 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3345 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4555 ; 1.683 ; 2.014 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 403 ; 5.858 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 153 ;31.606 ;23.660 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 549 ;16.765 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;18.927 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 480 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2572 ; 0.008 ; 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): 2019 ; 0.770 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3261 ; 1.434 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1326 ; 2.490 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1294 ; 3.833 ; 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 3NV6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060318. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAR-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 : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27333 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.2000 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 (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.23200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.800 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 3NV5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS, PH 8.3, 2.1M AMMONIUM REMARK 280 SULFATE, 4% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 82.57800 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 41.28900 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 41.28900 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 82.57800 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 725 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 -34 REMARK 465 GLY A -33 REMARK 465 SER A -32 REMARK 465 SER A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 HIS A -25 REMARK 465 SER A -24 REMARK 465 SER A -23 REMARK 465 GLY A -22 REMARK 465 LEU A -21 REMARK 465 VAL A -20 REMARK 465 PRO A -19 REMARK 465 ARG A -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 MET A -14 REMARK 465 GLY A -13 REMARK 465 THR A -12 REMARK 465 THR A -11 REMARK 465 ARG A -10 REMARK 465 MET A -9 REMARK 465 ASP A -8 REMARK 465 THR A -7 REMARK 465 PHE A -6 REMARK 465 ASN A -5 REMARK 465 PRO A -4 REMARK 465 GLN A -3 REMARK 465 GLU A -2 REMARK 465 SER A -1 REMARK 465 ARG A 0 REMARK 465 LEU A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 ASN A 4 REMARK 465 PHE A 5 REMARK 465 ASP A 6 REMARK 465 GLU A 7 REMARK 465 ALA A 8 REMARK 465 VAL A 9 REMARK 465 ARG A 10 REMARK 465 ILE A 415 REMARK 465 ALA A 416 REMARK 465 ARG A 417 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 31 71.11 -159.63 REMARK 500 TYR A 97 61.47 -113.39 REMARK 500 TYR A 155 -61.22 -125.07 REMARK 500 LEU A 257 -84.43 -98.07 REMARK 500 HIS A 332 -62.75 -97.94 REMARK 500 CYS A 364 114.84 -29.51 REMARK 500 ASN A 408 83.72 60.64 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 418 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 364 SG REMARK 620 2 HEM A 418 NA 98.1 REMARK 620 3 HEM A 418 NB 91.7 89.2 REMARK 620 4 HEM A 418 NC 89.8 171.3 86.8 REMARK 620 5 HEM A 418 ND 96.2 91.3 171.9 91.6 REMARK 620 6 HOH A 589 O 175.0 83.6 83.6 88.2 88.4 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 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CAM A 422 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 747 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NV5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYTOCHROME P450 CYP101D2 DBREF 3NV6 A 2 417 UNP Q2G8A2 Q2G8A2_NOVAD 2 417 SEQADV 3NV6 MET A -34 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLY A -33 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -32 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -31 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -30 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -29 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -28 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -27 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -26 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -25 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -24 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -23 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLY A -22 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 LEU A -21 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 VAL A -20 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 PRO A -19 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 ARG A -18 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLY A -17 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -16 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 HIS A -15 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 MET A -14 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLY A -13 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 THR A -12 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 THR A -11 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 ARG A -10 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 MET A -9 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 ASP A -8 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 THR A -7 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 PHE A -6 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 ASN A -5 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 PRO A -4 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLN A -3 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 GLU A -2 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 SER A -1 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 ARG A 0 UNP Q2G8A2 EXPRESSION TAG SEQADV 3NV6 LEU A 1 UNP Q2G8A2 EXPRESSION TAG SEQRES 1 A 452 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 452 LEU VAL PRO ARG GLY SER HIS MET GLY THR THR ARG MET SEQRES 3 A 452 ASP THR PHE ASN PRO GLN GLU SER ARG LEU ALA THR ASN SEQRES 4 A 452 PHE ASP GLU ALA VAL ARG ALA LYS VAL GLU ARG PRO ALA SEQRES 5 A 452 ASN VAL PRO GLU ASP ARG VAL TYR GLU ILE ASP MET TYR SEQRES 6 A 452 ALA LEU ASN GLY ILE GLU ASP GLY TYR HIS GLU ALA TRP SEQRES 7 A 452 LYS LYS VAL GLN HIS PRO GLY ILE PRO ASP LEU ILE TRP SEQRES 8 A 452 THR PRO PHE THR GLY GLY HIS TRP ILE ALA THR ASN GLY SEQRES 9 A 452 ASP THR VAL LYS GLU VAL TYR SER ASP PRO THR ARG PHE SEQRES 10 A 452 SER SER GLU VAL ILE PHE LEU PRO LYS GLU ALA GLY GLU SEQRES 11 A 452 LYS TYR GLN MET VAL PRO THR LYS MET ASP PRO PRO GLU SEQRES 12 A 452 HIS THR PRO TYR ARG LYS ALA LEU ASP LYS GLY LEU ASN SEQRES 13 A 452 LEU ALA LYS ILE ARG LYS VAL GLU ASP LYS VAL ARG GLU SEQRES 14 A 452 VAL ALA SER SER LEU ILE ASP SER PHE ALA ALA ARG GLY SEQRES 15 A 452 GLU CYS ASP PHE ALA ALA GLU TYR ALA GLU LEU PHE PRO SEQRES 16 A 452 VAL HIS VAL PHE MET ALA LEU ALA ASP LEU PRO LEU GLU SEQRES 17 A 452 ASP ILE PRO VAL LEU SER GLU TYR ALA ARG GLN MET THR SEQRES 18 A 452 ARG PRO GLU GLY ASN THR PRO GLU GLU MET ALA THR ASP SEQRES 19 A 452 LEU GLU ALA GLY ASN ASN GLY PHE TYR ALA TYR VAL ASP SEQRES 20 A 452 PRO ILE ILE ARG ALA ARG VAL GLY GLY ASP GLY ASP ASP SEQRES 21 A 452 LEU ILE THR LEU MET VAL ASN SER GLU ILE ASN GLY GLU SEQRES 22 A 452 ARG ILE ALA HIS ASP LYS ALA GLN GLY LEU ILE SER LEU SEQRES 23 A 452 LEU LEU LEU GLY GLY LEU ASP THR VAL VAL ASN PHE LEU SEQRES 24 A 452 SER PHE PHE MET ILE HIS LEU ALA ARG HIS PRO GLU LEU SEQRES 25 A 452 VAL ALA GLU LEU ARG SER ASP PRO LEU LYS LEU MET ARG SEQRES 26 A 452 GLY ALA GLU GLU MET PHE ARG ARG PHE PRO VAL VAL SER SEQRES 27 A 452 GLU ALA ARG MET VAL ALA LYS ASP GLN GLU TYR LYS GLY SEQRES 28 A 452 VAL PHE LEU LYS ARG GLY ASP MET ILE LEU LEU PRO THR SEQRES 29 A 452 ALA LEU HIS GLY LEU ASP ASP ALA ALA ASN PRO GLU PRO SEQRES 30 A 452 TRP LYS LEU ASP PHE SER ARG ARG SER ILE SER HIS SER SEQRES 31 A 452 THR PHE GLY GLY GLY PRO HIS ARG CYS ALA GLY MET HIS SEQRES 32 A 452 LEU ALA ARG MET GLU VAL ILE VAL THR LEU GLU GLU TRP SEQRES 33 A 452 LEU LYS ARG ILE PRO GLU PHE SER PHE LYS GLU GLY GLU SEQRES 34 A 452 THR PRO ILE TYR HIS SER GLY ILE VAL ALA ALA VAL GLU SEQRES 35 A 452 ASN VAL PRO LEU VAL TRP PRO ILE ALA ARG HET HEM A 418 43 HET CAM A 422 11 HET PEG A 747 7 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CAM CAMPHOR HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 CAM C10 H16 O FORMUL 4 PEG C4 H10 O3 FORMUL 5 HOH *305(H2 O) HELIX 1 1 PRO A 20 VAL A 24 5 5 HELIX 2 2 GLY A 34 ASP A 37 5 4 HELIX 3 3 GLY A 38 GLN A 47 1 10 HELIX 4 4 ASN A 68 ASP A 78 1 11 HELIX 5 5 PRO A 90 TYR A 97 1 8 HELIX 6 6 GLU A 108 ASN A 121 1 14 HELIX 7 7 ASN A 121 LYS A 127 1 7 HELIX 8 8 VAL A 128 ALA A 144 1 17 HELIX 9 9 PHE A 151 TYR A 155 1 5 HELIX 10 10 LEU A 158 ASP A 169 1 12 HELIX 11 11 PRO A 171 GLU A 173 5 3 HELIX 12 12 ASP A 174 ARG A 187 1 14 HELIX 13 13 THR A 192 VAL A 219 1 28 HELIX 14 14 ASP A 225 ASN A 232 1 8 HELIX 15 15 ALA A 241 GLY A 256 1 16 HELIX 16 16 LEU A 257 ARG A 273 1 17 HELIX 17 17 HIS A 274 ASP A 284 1 11 HELIX 18 18 ASP A 284 ARG A 290 1 7 HELIX 19 19 GLY A 291 PHE A 299 1 9 HELIX 20 20 THR A 329 LEU A 334 1 6 HELIX 21 21 GLY A 359 ARG A 363 5 5 HELIX 22 22 GLY A 366 ILE A 385 1 20 SHEET 1 A 5 LEU A 54 THR A 57 0 SHEET 2 A 5 HIS A 63 ALA A 66 -1 O HIS A 63 N THR A 57 SHEET 3 A 5 MET A 324 PRO A 328 1 O MET A 324 N TRP A 64 SHEET 4 A 5 SER A 303 VAL A 308 -1 N GLU A 304 O LEU A 327 SHEET 5 A 5 PHE A 82 SER A 83 -1 N SER A 83 O MET A 307 SHEET 1 B 3 GLU A 148 ASP A 150 0 SHEET 2 B 3 PRO A 410 VAL A 412 -1 O LEU A 411 N CYS A 149 SHEET 3 B 3 SER A 389 PHE A 390 -1 N SER A 389 O VAL A 412 SHEET 1 C 2 GLU A 234 ILE A 235 0 SHEET 2 C 2 GLU A 238 ARG A 239 -1 O GLU A 238 N ILE A 235 SHEET 1 D 2 GLN A 312 TYR A 314 0 SHEET 2 D 2 VAL A 317 LEU A 319 -1 O LEU A 319 N GLN A 312 SHEET 1 E 2 ILE A 397 HIS A 399 0 SHEET 2 E 2 ALA A 405 GLU A 407 -1 O GLU A 407 N ILE A 397 LINK SG CYS A 364 FE HEM A 418 1555 1555 2.23 LINK FE HEM A 418 O HOH A 589 1555 1555 2.05 CISPEP 1 LEU A 89 PRO A 90 0 2.67 CISPEP 2 VAL A 100 PRO A 101 0 0.52 CISPEP 3 PRO A 106 PRO A 107 0 5.67 SITE 1 AC1 20 THR A 102 HIS A 109 ARG A 113 LEU A 251 SITE 2 AC1 20 LEU A 252 GLY A 255 GLY A 256 THR A 259 SITE 3 AC1 20 GLU A 304 ARG A 306 THR A 356 PHE A 357 SITE 4 AC1 20 GLY A 358 HIS A 362 CYS A 364 GLY A 366 SITE 5 AC1 20 CAM A 422 HOH A 464 HOH A 498 HOH A 589 SITE 1 AC2 5 GLY A 255 ILE A 402 VAL A 403 HEM A 418 SITE 2 AC2 5 HOH A 589 SITE 1 AC3 12 ALA A 202 GLY A 206 HIS A 270 HIS A 274 SITE 2 AC3 12 LEU A 277 TRP A 343 LYS A 344 LEU A 345 SITE 3 AC3 12 HOH A 489 HOH A 667 HOH A 708 HOH A 736 CRYST1 86.080 86.080 123.867 90.00 90.00 120.00 P 32 2 1 6 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 0.011617 0.006707 0.000000 0.00000 SCALE2 0.000000 0.013414 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008073 0.00000