HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 15-JUL-09 3IBD TITLE CRYSTAL STRUCTURE OF A CYTOCHROME P450 2B6 GENETIC VARIANT IN COMPLEX TITLE 2 WITH THE INHIBITOR 4-(4-CHLOROPHENYL)IMIDAZOLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 2B6; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYPIIB6, P450 IIB1; COMPND 5 EC: 1.14.14.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CYP2B6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PKK KEYWDS P450, CYTOCHROME P450 2B6, MONOOXYGENASE, OXIDOREDUCTASE, MEMBRANE KEYWDS 2 PROTEIN, CYP 2B6, ENDOPLASMIC RETICULUM, HEME, IRON, MEMBRANE, KEYWDS 3 METAL-BINDING, MICROSOME, PHOSPHOPROTEIN, OXIDOREDUCTASE- KEYWDS 4 OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.C.GAY,L.SUN,J.C.TALAKAD,M.B.SHAH,D.C.STOUT,J.R.HALPERT REVDAT 5 06-SEP-23 3IBD 1 REMARK REVDAT 4 13-OCT-21 3IBD 1 REMARK SEQADV REVDAT 3 26-OCT-11 3IBD 1 HEADER VERSN REVDAT 2 28-APR-10 3IBD 1 JRNL REVDAT 1 19-JAN-10 3IBD 0 JRNL AUTH S.C.GAY,M.B.SHAH,J.C.TALAKAD,K.MAEKAWA,A.G.ROBERTS, JRNL AUTH 2 P.R.WILDERMAN,L.SUN,J.Y.YANG,S.C.HUELGA,W.X.HONG,Q.ZHANG, JRNL AUTH 3 C.D.STOUT,J.R.HALPERT JRNL TITL CRYSTAL STRUCTURE OF A CYTOCHROME P450 2B6 GENETIC VARIANT JRNL TITL 2 IN COMPLEX WITH THE INHIBITOR 4-(4-CHLOROPHENYL)IMIDAZOLE AT JRNL TITL 3 2.0-A RESOLUTION. JRNL REF MOL.PHARMACOL. V. 77 529 2010 JRNL REFN ISSN 0026-895X JRNL PMID 20061448 JRNL DOI 10.1124/MOL.109.062570 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 98.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 32494 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1640 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) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1955 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3699 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 89 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.88000 REMARK 3 B22 (A**2) : -0.69000 REMARK 3 B33 (A**2) : -0.26000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.189 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.010 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3925 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5327 ; 1.767 ; 2.007 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 474 ; 6.384 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;34.825 ;22.793 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 633 ;17.358 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;19.742 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 567 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3007 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1928 ; 0.232 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2697 ; 0.316 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 200 ; 0.173 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.035 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 67 ; 0.320 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.198 ; 0.200 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): 2346 ; 1.061 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3784 ; 1.925 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1580 ; 3.030 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1538 ; 4.813 ; 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 : 1.20 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 3IBD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000054200. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32536 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.998 REMARK 200 RESOLUTION RANGE LOW (A) : 98.451 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.13100 REMARK 200 R SYM (I) : 0.13100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.8000 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) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.48700 REMARK 200 R SYM FOR SHELL (I) : 0.48700 REMARK 200 <I/SIGMA(I)> 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: PHASER 1.3.3 REMARK 200 STARTING MODEL: ENSEMBLE OF PDB ID 2Q6N (A CHAIN), 1SUO, 2BDM, REMARK 200 3G5N (A CHAIN) EACH WITH RESIDUES 101-120, 205-232 OMITTED REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE (PH 5.5), 0.2 M REMARK 280 POTASSIUM THIOCYANATE, 10% (W/V) PEG 1000, 10% (W/V) PEG 8000, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 44.78650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.87000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 44.78650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.87000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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 1 REMARK 465 ALA A 2 REMARK 465 LYS A 22 REMARK 465 LYS A 23 REMARK 465 THR A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 LYS A 27 REMARK 465 HIS A 493 REMARK 465 HIS A 494 REMARK 465 HIS A 495 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 35 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 39 CG CD1 CD2 REMARK 470 GLU A 60 CG CD OE1 OE2 REMARK 470 LYS A 100 CG CD CE NZ REMARK 470 ARG A 133 CG CD NE CZ NH1 NH2 REMARK 470 MET A 137 CG SD CE REMARK 470 LYS A 139 CG CD CE NZ REMARK 470 LYS A 159 CG CD CE NZ REMARK 470 GLU A 218 CG CD OE1 OE2 REMARK 470 LYS A 251 CG CD CE NZ REMARK 470 GLU A 275 CG CD OE1 OE2 REMARK 470 HIS A 280 CG ND1 CD2 CE1 NE2 REMARK 470 PHE A 283 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 417 CG OD1 ND2 REMARK 470 HIS A 492 CG ND1 CD2 CE1 NE2 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 308 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 308 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 434 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 434 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 491 CG - CD - NE ANGL. DEV. = -16.3 DEGREES REMARK 500 ARG A 491 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 491 NE - CZ - NH2 ANGL. DEV. = -7.3 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 LYS A 29 -121.79 -137.86 REMARK 500 SER A 281 36.63 38.80 REMARK 500 SER A 430 -159.86 69.95 REMARK 500 CYS A 436 119.75 -32.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CM5 A 1001 REMARK 610 CM5 A 1002 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 500 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 436 SG REMARK 620 2 HEM A 500 NA 97.0 REMARK 620 3 HEM A 500 NB 87.0 85.8 REMARK 620 4 HEM A 500 NC 84.4 178.5 94.2 REMARK 620 5 HEM A 500 ND 93.5 90.5 176.4 89.5 REMARK 620 6 CPZ A 501 N1 177.2 85.5 92.1 93.0 87.5 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 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPZ A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CM5 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CM5 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SCN A 1006 DBREF 3IBD A 30 491 UNP P20813 CP2B6_HUMAN 30 491 SEQADV 3IBD MET A 1 UNP P20813 EXPRESSION TAG SEQADV 3IBD ALA A 2 UNP P20813 EXPRESSION TAG SEQADV 3IBD LYS A 22 UNP P20813 EXPRESSION TAG SEQADV 3IBD LYS A 23 UNP P20813 EXPRESSION TAG SEQADV 3IBD THR A 24 UNP P20813 EXPRESSION TAG SEQADV 3IBD SER A 25 UNP P20813 EXPRESSION TAG SEQADV 3IBD SER A 26 UNP P20813 EXPRESSION TAG SEQADV 3IBD LYS A 27 UNP P20813 EXPRESSION TAG SEQADV 3IBD GLY A 28 UNP P20813 EXPRESSION TAG SEQADV 3IBD LYS A 29 UNP P20813 EXPRESSION TAG SEQADV 3IBD HIS A 226 UNP P20813 TYR 226 ENGINEERED MUTATION SEQADV 3IBD ARG A 262 UNP P20813 LYS 262 ENGINEERED MUTATION SEQADV 3IBD HIS A 492 UNP P20813 EXPRESSION TAG SEQADV 3IBD HIS A 493 UNP P20813 EXPRESSION TAG SEQADV 3IBD HIS A 494 UNP P20813 EXPRESSION TAG SEQADV 3IBD HIS A 495 UNP P20813 EXPRESSION TAG SEQRES 1 A 476 MET ALA LYS LYS THR SER SER LYS GLY LYS LEU PRO PRO SEQRES 2 A 476 GLY PRO ARG PRO LEU PRO LEU LEU GLY ASN LEU LEU GLN SEQRES 3 A 476 MET ASP ARG ARG GLY LEU LEU LYS SER PHE LEU ARG PHE SEQRES 4 A 476 ARG GLU LYS TYR GLY ASP VAL PHE THR VAL HIS LEU GLY SEQRES 5 A 476 PRO ARG PRO VAL VAL MET LEU CYS GLY VAL GLU ALA ILE SEQRES 6 A 476 ARG GLU ALA LEU VAL ASP LYS ALA GLU ALA PHE SER GLY SEQRES 7 A 476 ARG GLY LYS ILE ALA MET VAL ASP PRO PHE PHE ARG GLY SEQRES 8 A 476 TYR GLY VAL ILE PHE ALA ASN GLY ASN ARG TRP LYS VAL SEQRES 9 A 476 LEU ARG ARG PHE SER VAL THR THR MET ARG ASP PHE GLY SEQRES 10 A 476 MET GLY LYS ARG SER VAL GLU GLU ARG ILE GLN GLU GLU SEQRES 11 A 476 ALA GLN CYS LEU ILE GLU GLU LEU ARG LYS SER LYS GLY SEQRES 12 A 476 ALA LEU MET ASP PRO THR PHE LEU PHE GLN SER ILE THR SEQRES 13 A 476 ALA ASN ILE ILE CYS SER ILE VAL PHE GLY LYS ARG PHE SEQRES 14 A 476 HIS TYR GLN ASP GLN GLU PHE LEU LYS MET LEU ASN LEU SEQRES 15 A 476 PHE TYR GLN THR PHE SER LEU ILE SER SER VAL PHE GLY SEQRES 16 A 476 GLN LEU PHE GLU LEU PHE SER GLY PHE LEU LYS HIS PHE SEQRES 17 A 476 PRO GLY ALA HIS ARG GLN VAL TYR LYS ASN LEU GLN GLU SEQRES 18 A 476 ILE ASN ALA TYR ILE GLY HIS SER VAL GLU LYS HIS ARG SEQRES 19 A 476 GLU THR LEU ASP PRO SER ALA PRO ARG ASP LEU ILE ASP SEQRES 20 A 476 THR TYR LEU LEU HIS MET GLU LYS GLU LYS SER ASN ALA SEQRES 21 A 476 HIS SER GLU PHE SER HIS GLN ASN LEU ASN LEU ASN THR SEQRES 22 A 476 LEU SER LEU PHE PHE ALA GLY THR GLU THR THR SER THR SEQRES 23 A 476 THR LEU ARG TYR GLY PHE LEU LEU MET LEU LYS TYR PRO SEQRES 24 A 476 HIS VAL ALA GLU ARG VAL TYR ARG GLU ILE GLU GLN VAL SEQRES 25 A 476 ILE GLY PRO HIS ARG PRO PRO GLU LEU HIS ASP ARG ALA SEQRES 26 A 476 LYS MET PRO TYR THR GLU ALA VAL ILE TYR GLU ILE GLN SEQRES 27 A 476 ARG PHE SER ASP LEU LEU PRO MET GLY VAL PRO HIS ILE SEQRES 28 A 476 VAL THR GLN HIS THR SER PHE ARG GLY TYR ILE ILE PRO SEQRES 29 A 476 LYS ASP THR GLU VAL PHE LEU ILE LEU SER THR ALA LEU SEQRES 30 A 476 HIS ASP PRO HIS TYR PHE GLU LYS PRO ASP ALA PHE ASN SEQRES 31 A 476 PRO ASP HIS PHE LEU ASP ALA ASN GLY ALA LEU LYS LYS SEQRES 32 A 476 THR GLU ALA PHE ILE PRO PHE SER LEU GLY LYS ARG ILE SEQRES 33 A 476 CYS LEU GLY GLU GLY ILE ALA ARG ALA GLU LEU PHE LEU SEQRES 34 A 476 PHE PHE THR THR ILE LEU GLN ASN PHE SER MET ALA SER SEQRES 35 A 476 PRO VAL ALA PRO GLU ASP ILE ASP LEU THR PRO GLN GLU SEQRES 36 A 476 CYS GLY VAL GLY LYS ILE PRO PRO THR TYR GLN ILE ARG SEQRES 37 A 476 PHE LEU PRO ARG HIS HIS HIS HIS HET HEM A 500 43 HET CPZ A 501 12 HET CM5 A1001 12 HET CM5 A1002 10 HET SCN A1003 3 HET SCN A1004 3 HET SCN A1005 3 HET SCN A1006 3 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CPZ 4-(4-CHLOROPHENYL)IMIDAZOLE HETNAM CM5 5-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE HETNAM SCN THIOCYANATE ION HETSYN HEM HEME HETSYN CM5 5-CYCLOHEXYLPENTYL 4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D- HETSYN 2 CM5 GLUCOPYRANOSIDE; CYMAL-5 FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 CPZ C9 H7 CL N2 FORMUL 4 CM5 2(C23 H42 O11) FORMUL 6 SCN 4(C N S 1-) FORMUL 10 HOH *176(H2 O) HELIX 1 1 ASN A 42 MET A 46 5 5 HELIX 2 2 GLY A 50 GLY A 63 1 14 HELIX 3 3 GLY A 80 VAL A 89 1 10 HELIX 4 4 GLU A 93 SER A 96 5 4 HELIX 5 5 VAL A 104 ARG A 109 1 6 HELIX 6 6 ASN A 117 PHE A 135 1 19 HELIX 7 7 SER A 141 SER A 160 1 20 HELIX 8 8 PRO A 167 GLY A 185 1 19 HELIX 9 9 ASP A 192 SER A 210 1 19 HELIX 10 10 SER A 211 LYS A 225 1 15 HELIX 11 11 GLY A 229 THR A 255 1 27 HELIX 12 12 ASP A 263 LYS A 276 1 14 HELIX 13 13 ASN A 287 TYR A 317 1 31 HELIX 14 14 TYR A 317 ILE A 332 1 16 HELIX 15 15 GLU A 339 LYS A 345 5 7 HELIX 16 16 MET A 346 ASP A 361 1 16 HELIX 17 17 ILE A 391 HIS A 397 1 7 HELIX 18 18 ASN A 409 LEU A 414 5 6 HELIX 19 19 LEU A 431 ILE A 435 5 5 HELIX 20 20 GLY A 438 ASN A 456 1 19 HELIX 21 21 ALA A 464 ILE A 468 5 5 SHEET 1 A 5 VAL A 65 LEU A 70 0 SHEET 2 A 5 ARG A 73 LEU A 78 -1 O MET A 77 N PHE A 66 SHEET 3 A 5 GLU A 387 LEU A 390 1 O PHE A 389 N VAL A 76 SHEET 4 A 5 HIS A 369 ILE A 370 -1 N HIS A 369 O VAL A 388 SHEET 5 A 5 GLY A 97 ARG A 98 -1 N GLY A 97 O ILE A 370 SHEET 1 B 2 THR A 375 PHE A 377 0 SHEET 2 B 2 TYR A 380 ILE A 382 -1 O ILE A 382 N THR A 375 SHEET 1 C 2 PHE A 457 ALA A 460 0 SHEET 2 C 2 ARG A 487 PRO A 490 -1 O LEU A 489 N SER A 458 SHEET 1 D 2 GLU A 474 CYS A 475 0 SHEET 2 D 2 LYS A 479 ILE A 480 -1 O ILE A 480 N GLU A 474 LINK SG CYS A 436 FE HEM A 500 1555 1555 2.25 LINK FE HEM A 500 N1 CPZ A 501 1555 1555 2.37 SITE 1 AC1 24 HOH A 14 ARG A 98 VAL A 113 ILE A 114 SITE 2 AC1 24 TRP A 121 ARG A 125 ALA A 298 GLY A 299 SITE 3 AC1 24 THR A 302 THR A 303 THR A 306 GLN A 357 SITE 4 AC1 24 LEU A 363 VAL A 367 HIS A 369 LEU A 392 SITE 5 AC1 24 PRO A 428 PHE A 429 SER A 430 ARG A 434 SITE 6 AC1 24 CYS A 436 LEU A 437 GLY A 438 CPZ A 501 SITE 1 AC2 6 PHE A 297 ALA A 298 THR A 302 VAL A 367 SITE 2 AC2 6 HOH A 497 HEM A 500 SITE 1 AC3 6 PHE A 188 GLU A 194 MET A 198 PHE A 202 SITE 2 AC3 6 TYR A 244 PHE A 296 SITE 1 AC4 2 ASP A 47 LEU A 51 SITE 1 AC5 6 LYS A 91 ALA A 92 GLU A 93 ALA A 94 SITE 2 AC5 6 SER A 461 PRO A 462 SITE 1 AC6 5 ALA A 321 GLU A 322 MET A 459 ARG A 491 SITE 2 AC6 5 HOH A 607 SITE 1 AC7 3 TYR A 317 PRO A 318 HIS A 319 SITE 1 AC8 3 ARG A 57 PHE A 58 LYS A 61 CRYST1 89.573 55.740 99.090 90.00 96.51 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 0.011164 0.000000 0.001274 0.00000 SCALE2 0.000000 0.017940 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010157 0.00000