PDB Short entry for 3QM4 HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 03-FEB-11 3QM4 TITLE HUMAN CYTOCHROME P450 (CYP) 2D6 - PRINOMASTAT COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 2D6; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 34-497; COMPND 5 SYNONYM: CYPIID6, CYTOCHROME P450-DB1, DEBRISOQUINE 4-HYDROXYLASE; COMPND 6 EC: 1.14.14.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CYP2D6, CYP2DL1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: DH5ALPHA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCWORI KEYWDS CYP2D6, P450 2D6, P450, MONOOXYGENASE, PRINOMASTAT, HEME, KEYWDS 2 OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.WANG,C.D.STOUT,E.F.JOHNSON REVDAT 5 13-SEP-23 3QM4 1 REMARK SEQADV LINK REVDAT 4 18-JUL-12 3QM4 1 JRNL REVDAT 3 04-JUL-12 3QM4 1 JRNL REVDAT 2 22-FEB-12 3QM4 1 JRNL REVDAT 1 15-FEB-12 3QM4 0 JRNL AUTH A.WANG,U.SAVAS,M.H.HSU,C.D.STOUT,E.F.JOHNSON JRNL TITL CRYSTAL STRUCTURE OF HUMAN CYTOCHROME P450 2D6 WITH JRNL TITL 2 PRINOMASTAT BOUND. JRNL REF J.BIOL.CHEM. V. 287 10834 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22308038 JRNL DOI 10.1074/JBC.M111.307918 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.3 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1384624.800 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 25690 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 SET) : 0.243 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1314 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.03 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4052 REMARK 3 BIN R VALUE (WORKING SET) : 0.3880 REMARK 3 BIN FREE R VALUE : 0.4180 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 210 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.029 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7295 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 143 REMARK 3 SOLVENT ATOMS : 7 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 77.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 77.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -25.37000 REMARK 3 B22 (A**2) : 35.44000 REMARK 3 B33 (A**2) : -10.07000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 12.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.43 REMARK 3 ESD FROM SIGMAA (A) : 0.70 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.54 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.77 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.070 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.200 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.110 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.620 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.610 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 38.11 REMARK 3 REMARK 3 NCS MODEL : CONSTR REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 6 : XDICT_HEME.PAR REMARK 3 PARAMETER FILE 7 : LIG.PAR REMARK 3 PARAMETER FILE 8 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 6 : XDICT_HEME.TOP REMARK 3 TOPOLOGY FILE 7 : LIG.TOP REMARK 3 TOPOLOGY FILE 8 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3QM4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063817. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : SIDE SCATTERING BENT CUBE-ROOT I REMARK 200 -BEAM SINGLE CRYSTAL REMARK 200 OPTICS : RH COATED FLAT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25762 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 40.820 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : 0.06500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.46800 REMARK 200 R SYM FOR SHELL (I) : 0.46800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 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: 2F9Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG-3350, AMMONIUM SULPHATE, SODIUM REMARK 280 CACODYLATE, POTASSIUM PHOSPHATE, NACL, GLYCEROL, BETA- REMARK 280 MERCAPTOETHANOL, PRINOMASTAT, HEGA-10, CHAPS, PH 7, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 97.27000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.53500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 97.27000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.53500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 23 REMARK 465 ALA A 24 REMARK 465 LYS A 25 REMARK 465 LYS A 26 REMARK 465 THR A 27 REMARK 465 SER A 28 REMARK 465 SER A 29 REMARK 465 LYS A 30 REMARK 465 GLY A 31 REMARK 465 LYS A 32 REMARK 465 HIS A 498 REMARK 465 HIS A 499 REMARK 465 HIS A 500 REMARK 465 HIS A 501 REMARK 465 MET B 23 REMARK 465 ALA B 24 REMARK 465 LYS B 25 REMARK 465 LYS B 26 REMARK 465 THR B 27 REMARK 465 SER B 28 REMARK 465 SER B 29 REMARK 465 LYS B 30 REMARK 465 GLY B 31 REMARK 465 LYS B 32 REMARK 465 LEU B 230 REMARK 465 LEU B 231 REMARK 465 HIS B 232 REMARK 465 ILE B 233 REMARK 465 PRO B 234 REMARK 465 ALA B 235 REMARK 465 LEU B 236 REMARK 465 ALA B 237 REMARK 465 HIS B 498 REMARK 465 HIS B 499 REMARK 465 HIS B 500 REMARK 465 HIS B 501 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 PRO A 35 -177.62 -53.53 REMARK 500 LEU A 38 86.25 53.97 REMARK 500 ASN A 53 52.12 -153.49 REMARK 500 ASP A 67 -63.92 20.99 REMARK 500 LEU A 73 95.65 -67.82 REMARK 500 ALA A 74 -137.41 74.66 REMARK 500 ILE A 106 -8.05 -50.59 REMARK 500 SER A 116 103.94 -164.47 REMARK 500 VAL A 119 -64.29 -122.39 REMARK 500 LEU A 142 22.60 -73.12 REMARK 500 LEU A 144 78.42 -66.98 REMARK 500 LYS A 147 -56.61 68.62 REMARK 500 SER A 148 -86.31 -75.04 REMARK 500 ASN A 166 8.33 -62.40 REMARK 500 ARG A 170 121.18 -39.50 REMARK 500 PRO A 228 59.15 -63.70 REMARK 500 ILE A 233 50.62 -140.48 REMARK 500 PRO A 234 -36.55 -37.60 REMARK 500 LEU A 241 16.72 54.82 REMARK 500 ALA A 282 41.53 -102.00 REMARK 500 THR A 309 -79.60 -120.48 REMARK 500 HIS A 324 59.29 -147.48 REMARK 500 ASP A 337 -72.39 -70.56 REMARK 500 LYS A 404 35.48 -140.23 REMARK 500 VAL A 408 -53.54 -126.88 REMARK 500 GLU A 410 -74.89 -57.26 REMARK 500 LYS A 411 79.52 -105.90 REMARK 500 GLU A 418 2.69 -61.94 REMARK 500 SER A 437 -154.12 66.56 REMARK 500 THR A 470 -60.53 -12.42 REMARK 500 ALA A 482 61.50 -156.35 REMARK 500 PHE A 483 -59.50 78.09 REMARK 500 PRO A 489 137.19 -33.44 REMARK 500 PRO B 37 155.58 -35.11 REMARK 500 PRO B 41 -72.53 -46.11 REMARK 500 LEU B 46 -1.45 -55.44 REMARK 500 ASP B 50 101.87 -51.40 REMARK 500 ASN B 53 51.94 -151.14 REMARK 500 ASP B 67 -55.39 15.61 REMARK 500 LEU B 73 91.85 -66.07 REMARK 500 ALA B 74 -136.29 73.63 REMARK 500 VAL B 92 -66.13 -101.42 REMARK 500 ILE B 106 -16.07 -44.80 REMARK 500 SER B 116 102.84 -164.62 REMARK 500 VAL B 119 -63.10 -124.72 REMARK 500 LEU B 144 74.47 -62.13 REMARK 500 LYS B 147 -58.54 68.62 REMARK 500 SER B 148 -84.66 -73.79 REMARK 500 ASN B 166 10.63 -63.41 REMARK 500 VAL B 227 60.48 -160.25 REMARK 500 REMARK 500 THIS ENTRY HAS 71 RAMACHANDRAN OUTLIERS. 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 502 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 443 SG REMARK 620 2 HEM A 502 NA 96.3 REMARK 620 3 HEM A 502 NB 89.5 89.2 REMARK 620 4 HEM A 502 NC 86.1 177.3 92.1 REMARK 620 5 HEM A 502 ND 88.8 89.3 177.6 89.4 REMARK 620 6 PN0 A 503 N2 172.6 91.0 89.2 86.7 92.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 600 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 258 NE2 REMARK 620 2 ASP B 270 OD1 101.4 REMARK 620 3 GLU B 273 OE1 136.2 113.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 502 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 443 SG REMARK 620 2 HEM B 502 NA 94.2 REMARK 620 3 HEM B 502 NB 92.9 89.1 REMARK 620 4 HEM B 502 NC 82.9 177.0 91.9 REMARK 620 5 HEM B 502 ND 86.0 89.9 178.5 89.0 REMARK 620 6 PN0 B 503 N2 176.1 85.3 83.2 97.6 97.9 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 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PN0 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PN0 B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2F9Q RELATED DB: PDB REMARK 900 P450 2D6 WITHOUT SUBSTRATE DBREF 3QM4 A 34 497 UNP P10635 CP2D6_HUMAN 34 497 DBREF 3QM4 B 34 497 UNP P10635 CP2D6_HUMAN 34 497 SEQADV 3QM4 MET A 23 UNP P10635 EXPRESSION TAG SEQADV 3QM4 ALA A 24 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS A 25 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS A 26 UNP P10635 EXPRESSION TAG SEQADV 3QM4 THR A 27 UNP P10635 EXPRESSION TAG SEQADV 3QM4 SER A 28 UNP P10635 EXPRESSION TAG SEQADV 3QM4 SER A 29 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS A 30 UNP P10635 EXPRESSION TAG SEQADV 3QM4 GLY A 31 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS A 32 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LEU A 33 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS A 498 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS A 499 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS A 500 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS A 501 UNP P10635 EXPRESSION TAG SEQADV 3QM4 MET B 23 UNP P10635 EXPRESSION TAG SEQADV 3QM4 ALA B 24 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS B 25 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS B 26 UNP P10635 EXPRESSION TAG SEQADV 3QM4 THR B 27 UNP P10635 EXPRESSION TAG SEQADV 3QM4 SER B 28 UNP P10635 EXPRESSION TAG SEQADV 3QM4 SER B 29 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS B 30 UNP P10635 EXPRESSION TAG SEQADV 3QM4 GLY B 31 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LYS B 32 UNP P10635 EXPRESSION TAG SEQADV 3QM4 LEU B 33 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS B 498 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS B 499 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS B 500 UNP P10635 EXPRESSION TAG SEQADV 3QM4 HIS B 501 UNP P10635 EXPRESSION TAG SEQRES 1 A 479 MET ALA LYS LYS THR SER SER LYS GLY LYS LEU PRO PRO SEQRES 2 A 479 GLY PRO LEU PRO LEU PRO GLY LEU GLY ASN LEU LEU HIS SEQRES 3 A 479 VAL ASP PHE GLN ASN THR PRO TYR CYS PHE ASP GLN LEU SEQRES 4 A 479 ARG ARG ARG PHE GLY ASP VAL PHE SER LEU GLN LEU ALA SEQRES 5 A 479 TRP THR PRO VAL VAL VAL LEU ASN GLY LEU ALA ALA VAL SEQRES 6 A 479 ARG GLU ALA LEU VAL THR HIS GLY GLU ASP THR ALA ASP SEQRES 7 A 479 ARG PRO PRO VAL PRO ILE THR GLN ILE LEU GLY PHE GLY SEQRES 8 A 479 PRO ARG SER GLN GLY VAL PHE LEU ALA ARG TYR GLY PRO SEQRES 9 A 479 ALA TRP ARG GLU GLN ARG ARG PHE SER VAL SER THR LEU SEQRES 10 A 479 ARG ASN LEU GLY LEU GLY LYS LYS SER LEU GLU GLN TRP SEQRES 11 A 479 VAL THR GLU GLU ALA ALA CYS LEU CYS ALA ALA PHE ALA SEQRES 12 A 479 ASN HIS SER GLY ARG PRO PHE ARG PRO ASN GLY LEU LEU SEQRES 13 A 479 ASP LYS ALA VAL SER ASN VAL ILE ALA SER LEU THR CYS SEQRES 14 A 479 GLY ARG ARG PHE GLU TYR ASP ASP PRO ARG PHE LEU ARG SEQRES 15 A 479 LEU LEU ASP LEU ALA GLN GLU GLY LEU LYS GLU GLU SER SEQRES 16 A 479 GLY PHE LEU ARG GLU VAL LEU ASN ALA VAL PRO VAL LEU SEQRES 17 A 479 LEU HIS ILE PRO ALA LEU ALA GLY LYS VAL LEU ARG PHE SEQRES 18 A 479 GLN LYS ALA PHE LEU THR GLN LEU ASP GLU LEU LEU THR SEQRES 19 A 479 GLU HIS ARG MET THR TRP ASP PRO ALA GLN PRO PRO ARG SEQRES 20 A 479 ASP LEU THR GLU ALA PHE LEU ALA GLU MET GLU LYS ALA SEQRES 21 A 479 LYS GLY ASN PRO GLU SER SER PHE ASN ASP GLU ASN LEU SEQRES 22 A 479 ARG ILE VAL VAL ALA ASP LEU PHE SER ALA GLY MET VAL SEQRES 23 A 479 THR THR SER THR THR LEU ALA TRP GLY LEU LEU LEU MET SEQRES 24 A 479 ILE LEU HIS PRO ASP VAL GLN ARG ARG VAL GLN GLN GLU SEQRES 25 A 479 ILE ASP ASP VAL ILE GLY GLN VAL ARG ARG PRO GLU MET SEQRES 26 A 479 GLY ASP GLN ALA HIS MET PRO TYR THR THR ALA VAL ILE SEQRES 27 A 479 HIS GLU VAL GLN ARG PHE GLY ASP ILE VAL PRO LEU GLY SEQRES 28 A 479 VAL THR HIS MET THR SER ARG ASP ILE GLU VAL GLN GLY SEQRES 29 A 479 PHE ARG ILE PRO LYS GLY THR THR LEU ILE THR ASN LEU SEQRES 30 A 479 SER SER VAL LEU LYS ASP GLU ALA VAL TRP GLU LYS PRO SEQRES 31 A 479 PHE ARG PHE HIS PRO GLU HIS PHE LEU ASP ALA GLN GLY SEQRES 32 A 479 HIS PHE VAL LYS PRO GLU ALA PHE LEU PRO PHE SER ALA SEQRES 33 A 479 GLY ARG ARG ALA CYS LEU GLY GLU PRO LEU ALA ARG MET SEQRES 34 A 479 GLU LEU PHE LEU PHE PHE THR SER LEU LEU GLN HIS PHE SEQRES 35 A 479 SER PHE SER VAL PRO THR GLY GLN PRO ARG PRO SER HIS SEQRES 36 A 479 HIS GLY VAL PHE ALA PHE LEU VAL SER PRO SER PRO TYR SEQRES 37 A 479 GLU LEU CYS ALA VAL PRO ARG HIS HIS HIS HIS SEQRES 1 B 479 MET ALA LYS LYS THR SER SER LYS GLY LYS LEU PRO PRO SEQRES 2 B 479 GLY PRO LEU PRO LEU PRO GLY LEU GLY ASN LEU LEU HIS SEQRES 3 B 479 VAL ASP PHE GLN ASN THR PRO TYR CYS PHE ASP GLN LEU SEQRES 4 B 479 ARG ARG ARG PHE GLY ASP VAL PHE SER LEU GLN LEU ALA SEQRES 5 B 479 TRP THR PRO VAL VAL VAL LEU ASN GLY LEU ALA ALA VAL SEQRES 6 B 479 ARG GLU ALA LEU VAL THR HIS GLY GLU ASP THR ALA ASP SEQRES 7 B 479 ARG PRO PRO VAL PRO ILE THR GLN ILE LEU GLY PHE GLY SEQRES 8 B 479 PRO ARG SER GLN GLY VAL PHE LEU ALA ARG TYR GLY PRO SEQRES 9 B 479 ALA TRP ARG GLU GLN ARG ARG PHE SER VAL SER THR LEU SEQRES 10 B 479 ARG ASN LEU GLY LEU GLY LYS LYS SER LEU GLU GLN TRP SEQRES 11 B 479 VAL THR GLU GLU ALA ALA CYS LEU CYS ALA ALA PHE ALA SEQRES 12 B 479 ASN HIS SER GLY ARG PRO PHE ARG PRO ASN GLY LEU LEU SEQRES 13 B 479 ASP LYS ALA VAL SER ASN VAL ILE ALA SER LEU THR CYS SEQRES 14 B 479 GLY ARG ARG PHE GLU TYR ASP ASP PRO ARG PHE LEU ARG SEQRES 15 B 479 LEU LEU ASP LEU ALA GLN GLU GLY LEU LYS GLU GLU SER SEQRES 16 B 479 GLY PHE LEU ARG GLU VAL LEU ASN ALA VAL PRO VAL LEU SEQRES 17 B 479 LEU HIS ILE PRO ALA LEU ALA GLY LYS VAL LEU ARG PHE SEQRES 18 B 479 GLN LYS ALA PHE LEU THR GLN LEU ASP GLU LEU LEU THR SEQRES 19 B 479 GLU HIS ARG MET THR TRP ASP PRO ALA GLN PRO PRO ARG SEQRES 20 B 479 ASP LEU THR GLU ALA PHE LEU ALA GLU MET GLU LYS ALA SEQRES 21 B 479 LYS GLY ASN PRO GLU SER SER PHE ASN ASP GLU ASN LEU SEQRES 22 B 479 ARG ILE VAL VAL ALA ASP LEU PHE SER ALA GLY MET VAL SEQRES 23 B 479 THR THR SER THR THR LEU ALA TRP GLY LEU LEU LEU MET SEQRES 24 B 479 ILE LEU HIS PRO ASP VAL GLN ARG ARG VAL GLN GLN GLU SEQRES 25 B 479 ILE ASP ASP VAL ILE GLY GLN VAL ARG ARG PRO GLU MET SEQRES 26 B 479 GLY ASP GLN ALA HIS MET PRO TYR THR THR ALA VAL ILE SEQRES 27 B 479 HIS GLU VAL GLN ARG PHE GLY ASP ILE VAL PRO LEU GLY SEQRES 28 B 479 VAL THR HIS MET THR SER ARG ASP ILE GLU VAL GLN GLY SEQRES 29 B 479 PHE ARG ILE PRO LYS GLY THR THR LEU ILE THR ASN LEU SEQRES 30 B 479 SER SER VAL LEU LYS ASP GLU ALA VAL TRP GLU LYS PRO SEQRES 31 B 479 PHE ARG PHE HIS PRO GLU HIS PHE LEU ASP ALA GLN GLY SEQRES 32 B 479 HIS PHE VAL LYS PRO GLU ALA PHE LEU PRO PHE SER ALA SEQRES 33 B 479 GLY ARG ARG ALA CYS LEU GLY GLU PRO LEU ALA ARG MET SEQRES 34 B 479 GLU LEU PHE LEU PHE PHE THR SER LEU LEU GLN HIS PHE SEQRES 35 B 479 SER PHE SER VAL PRO THR GLY GLN PRO ARG PRO SER HIS SEQRES 36 B 479 HIS GLY VAL PHE ALA PHE LEU VAL SER PRO SER PRO TYR SEQRES 37 B 479 GLU LEU CYS ALA VAL PRO ARG HIS HIS HIS HIS HET HEM A 502 43 HET PN0 A 503 28 HET HEM B 502 43 HET PN0 B 503 28 HET NI B 600 1 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PN0 PRINOMASTAT HETNAM NI NICKEL (II) ION HETSYN HEM HEME HETSYN PN0 (3S)-N-HYDROXY-2,2-DIMETHYL-4-{[4-(PYRIDIN-4-YLOXY) HETSYN 2 PN0 PHENYL]SULFONYL}THIOMORPHOLINE-3-CARBOXAMIDE FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 PN0 2(C18 H21 N3 O5 S2) FORMUL 7 NI NI 2+ FORMUL 8 HOH *7(H2 O) HELIX 1 1 ASN A 53 PHE A 65 1 13 HELIX 2 2 ASN A 82 VAL A 92 1 11 HELIX 3 3 HIS A 94 THR A 98 5 5 HELIX 4 4 VAL A 104 GLY A 111 5 8 HELIX 5 5 GLY A 125 LEU A 142 1 18 HELIX 6 6 SER A 148 ASN A 166 1 19 HELIX 7 7 PRO A 174 GLY A 192 1 19 HELIX 8 8 ASP A 199 GLU A 215 1 17 HELIX 9 9 GLY A 218 ASN A 225 1 8 HELIX 10 10 ILE A 233 VAL A 240 1 8 HELIX 11 11 LEU A 241 THR A 261 1 21 HELIX 12 12 ASP A 270 ALA A 282 1 13 HELIX 13 13 ASN A 291 GLY A 306 1 16 HELIX 14 14 THR A 309 LEU A 323 1 15 HELIX 15 15 HIS A 324 ILE A 339 1 16 HELIX 16 16 GLU A 346 HIS A 352 5 7 HELIX 17 17 MET A 353 ASP A 368 1 16 HELIX 18 18 ASN A 398 LYS A 404 1 7 HELIX 19 19 HIS A 416 LEU A 421 5 6 HELIX 20 20 GLY A 445 HIS A 463 1 19 HELIX 21 21 LEU B 43 HIS B 48 5 6 HELIX 22 22 ASN B 53 ARG B 63 1 11 HELIX 23 23 ASN B 82 VAL B 92 1 11 HELIX 24 24 HIS B 94 THR B 98 5 5 HELIX 25 25 VAL B 104 GLY B 111 5 8 HELIX 26 26 GLY B 125 LEU B 142 1 18 HELIX 27 27 SER B 148 ASN B 166 1 19 HELIX 28 28 PRO B 174 GLY B 192 1 19 HELIX 29 29 ASP B 199 GLU B 216 1 18 HELIX 30 30 GLY B 218 VAL B 227 1 10 HELIX 31 31 LEU B 241 TRP B 262 1 22 HELIX 32 32 ASP B 270 ALA B 282 1 13 HELIX 33 33 ASN B 291 GLY B 306 1 16 HELIX 34 34 THR B 309 LEU B 323 1 15 HELIX 35 35 HIS B 324 ILE B 339 1 16 HELIX 36 36 GLU B 346 HIS B 352 5 7 HELIX 37 37 MET B 353 ASP B 368 1 16 HELIX 38 38 ASN B 398 LYS B 404 1 7 HELIX 39 39 HIS B 416 LEU B 421 5 6 HELIX 40 40 GLY B 445 HIS B 463 1 19 SHEET 1 A 4 VAL A 68 LEU A 71 0 SHEET 2 A 4 VAL A 78 LEU A 81 -1 O VAL A 78 N LEU A 71 SHEET 3 A 4 THR A 394 THR A 397 1 O ILE A 396 N LEU A 81 SHEET 4 A 4 HIS A 376 MET A 377 -1 N HIS A 376 O LEU A 395 SHEET 1 B 2 ILE A 382 VAL A 384 0 SHEET 2 B 2 PHE A 387 ILE A 389 -1 O ILE A 389 N ILE A 382 SHEET 1 C 2 SER A 465 SER A 467 0 SHEET 2 C 2 CYS A 493 VAL A 495 -1 O CYS A 493 N SER A 467 SHEET 1 D 2 GLY A 479 PHE A 481 0 SHEET 2 D 2 VAL A 485 PRO A 487 -1 O SER A 486 N VAL A 480 SHEET 1 E 4 VAL B 68 LEU B 71 0 SHEET 2 E 4 VAL B 78 LEU B 81 -1 O VAL B 78 N LEU B 71 SHEET 3 E 4 THR B 394 THR B 397 1 O ILE B 396 N LEU B 81 SHEET 4 E 4 HIS B 376 MET B 377 -1 N HIS B 376 O LEU B 395 SHEET 1 F 2 ILE B 382 VAL B 384 0 SHEET 2 F 2 PHE B 387 ILE B 389 -1 O ILE B 389 N ILE B 382 SHEET 1 G 2 SER B 465 SER B 467 0 SHEET 2 G 2 CYS B 493 VAL B 495 -1 O CYS B 493 N SER B 467 SHEET 1 H 2 GLY B 479 PHE B 481 0 SHEET 2 H 2 VAL B 485 PRO B 487 -1 O SER B 486 N VAL B 480 LINK SG CYS A 443 FE HEM A 502 1555 1555 2.34 LINK FE HEM A 502 N2 PN0 A 503 1555 1555 2.21 LINK NE2 HIS B 258 NI NI B 600 1555 1555 2.07 LINK OD1 ASP B 270 NI NI B 600 1555 1555 2.16 LINK OE1 GLU B 273 NI NI B 600 1555 1555 1.99 LINK SG CYS B 443 FE HEM B 502 1555 1555 2.34 LINK FE HEM B 502 N2 PN0 B 503 1555 1555 2.22 SITE 1 AC1 17 ARG A 101 PHE A 120 TRP A 128 ARG A 132 SITE 2 AC1 17 ALA A 305 GLY A 306 THR A 309 VAL A 374 SITE 3 AC1 17 HIS A 376 LEU A 399 PRO A 435 PHE A 436 SITE 4 AC1 17 SER A 437 ARG A 441 CYS A 443 LEU A 444 SITE 5 AC1 17 PN0 A 503 SITE 1 AC2 14 LEU A 110 PHE A 120 GLY A 212 LEU A 213 SITE 2 AC2 14 GLU A 216 GLN A 244 PHE A 247 ALA A 300 SITE 3 AC2 14 ASP A 301 SER A 304 ALA A 305 THR A 309 SITE 4 AC2 14 PHE A 483 HEM A 502 SITE 1 AC3 20 ARG B 101 PHE B 120 TRP B 128 ARG B 132 SITE 2 AC3 20 LEU B 302 ALA B 305 GLY B 306 THR B 309 SITE 3 AC3 20 THR B 310 THR B 313 VAL B 374 HIS B 376 SITE 4 AC3 20 LEU B 399 PRO B 435 PHE B 436 SER B 437 SITE 5 AC3 20 ARG B 441 CYS B 443 LEU B 444 PN0 B 503 SITE 1 AC4 12 LEU B 110 PHE B 120 GLY B 212 LEU B 213 SITE 2 AC4 12 GLU B 216 GLN B 244 ALA B 300 ASP B 301 SITE 3 AC4 12 SER B 304 ALA B 305 PHE B 483 HEM B 502 SITE 1 AC5 4 HIS B 258 ASP B 270 GLU B 273 GLU B 287 CRYST1 194.540 55.070 145.870 90.00 134.97 90.00 C 1 2 1 8 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 0.005140 0.000000 0.005135 0.00000 SCALE2 0.000000 0.018159 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009690 0.00000