PDB Short entry for 4WNW HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 14-OCT-14 4WNW TITLE HUMAN CYTOCHROME P450 2D6 THIORIDAZINE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 2D6; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP 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: 562; 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, OXIDOREDUCTASE-OXIDOREDUCTASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.WANG,C.D.STOUT,E.F.JOHNSON REVDAT 6 25-DEC-19 4WNW 1 REMARK REVDAT 5 22-NOV-17 4WNW 1 REMARK REVDAT 4 13-SEP-17 4WNW 1 SOURCE JRNL REMARK REVDAT 3 04-MAR-15 4WNW 1 JRNL REVDAT 2 21-JAN-15 4WNW 1 JRNL REVDAT 1 14-JAN-15 4WNW 0 JRNL AUTH A.WANG,C.D.STOUT,Q.ZHANG,E.F.JOHNSON JRNL TITL CONTRIBUTIONS OF IONIC INTERACTIONS AND PROTEIN DYNAMICS TO JRNL TITL 2 CYTOCHROME P450 2D6 (CYP2D6) SUBSTRATE AND INHIBITOR JRNL TITL 3 BINDING. JRNL REF J.BIOL.CHEM. V. 290 5092 2015 JRNL REFN ESSN 1083-351X JRNL PMID 25555909 JRNL DOI 10.1074/JBC.M114.627661 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 32455 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.245 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1648 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.9792 - 7.5254 0.99 2529 163 0.1933 0.1903 REMARK 3 2 7.5254 - 5.9848 1.00 2512 179 0.2336 0.3151 REMARK 3 3 5.9848 - 5.2317 1.00 2603 135 0.2510 0.3316 REMARK 3 4 5.2317 - 4.7549 1.00 2584 124 0.2358 0.2919 REMARK 3 5 4.7549 - 4.4149 1.00 2579 126 0.2283 0.2460 REMARK 3 6 4.4149 - 4.1552 1.00 2549 149 0.2310 0.3303 REMARK 3 7 4.1552 - 3.9474 1.00 2584 134 0.2528 0.3072 REMARK 3 8 3.9474 - 3.7758 1.00 2606 136 0.2598 0.3014 REMARK 3 9 3.7758 - 3.6307 1.00 2576 114 0.2801 0.3609 REMARK 3 10 3.6307 - 3.5055 1.00 2589 130 0.2753 0.3264 REMARK 3 11 3.5055 - 3.3960 1.00 2588 118 0.2958 0.3632 REMARK 3 12 3.3960 - 3.2990 0.97 2508 140 0.3020 0.3425 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.620 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 74.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 7649 REMARK 3 ANGLE : 0.884 10434 REMARK 3 CHIRALITY : 0.033 1119 REMARK 3 PLANARITY : 0.007 1418 REMARK 3 DIHEDRAL : 15.117 2861 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4WNW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000204145. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 0.97964 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 : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16994 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.298 REMARK 200 RESOLUTION RANGE LOW (A) : 33.102 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.49100 REMARK 200 R SYM FOR SHELL (I) : 0.49100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 3QM4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 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, VAPOR DIFFUSION, REMARK 280 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 97.09500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.67450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 97.09500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.67450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: MONOMERIC 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 GLY A 143 REMARK 465 LEU A 144 REMARK 465 GLY A 145 REMARK 465 LYS A 146 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 GLY B 143 REMARK 465 LEU B 144 REMARK 465 GLY B 145 REMARK 465 LYS B 146 REMARK 465 LYS B 147 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 ASN A 53 44.73 -157.73 REMARK 500 ALA A 74 -122.74 49.59 REMARK 500 VAL A 92 -61.97 -105.41 REMARK 500 ASN A 166 3.58 -63.40 REMARK 500 PRO A 228 12.57 -67.00 REMARK 500 HIS A 324 54.54 -151.03 REMARK 500 VAL A 338 -61.73 -91.29 REMARK 500 VAL A 408 -53.94 -127.64 REMARK 500 GLU A 418 4.36 -64.15 REMARK 500 SER A 437 -152.85 65.04 REMARK 500 PHE A 483 -54.71 70.45 REMARK 500 LEU B 43 -4.93 77.45 REMARK 500 ASN B 53 53.40 -156.15 REMARK 500 ALA B 74 -132.15 53.19 REMARK 500 VAL B 92 -65.49 -101.12 REMARK 500 ILE B 106 -19.19 -44.24 REMARK 500 ASN B 166 11.35 -65.65 REMARK 500 VAL B 223 -70.51 -62.46 REMARK 500 VAL B 240 -67.52 -93.98 REMARK 500 ALA B 265 32.65 -92.66 REMARK 500 PRO B 268 129.02 -39.11 REMARK 500 ALA B 282 7.72 -66.68 REMARK 500 HIS B 324 56.94 -147.38 REMARK 500 VAL B 342 -31.54 -139.55 REMARK 500 SER B 437 -154.68 62.89 REMARK 500 PHE B 483 -56.33 71.79 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 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 443 SG REMARK 620 2 HEM A 601 NA 90.6 REMARK 620 3 HEM A 601 NB 80.8 90.5 REMARK 620 4 HEM A 601 NC 87.0 177.5 90.1 REMARK 620 5 HEM A 601 ND 96.4 89.5 177.2 89.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 604 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 258 NE2 REMARK 620 2 ASP B 270 OD2 85.2 REMARK 620 3 GLU B 273 OE1 121.9 132.5 REMARK 620 4 GLU B 287 OE1 73.6 73.7 77.9 REMARK 620 5 GLU B 287 OE2 71.1 74.0 79.2 2.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 443 SG REMARK 620 2 HEM B 601 NA 89.6 REMARK 620 3 HEM B 601 NB 84.7 87.7 REMARK 620 4 HEM B 601 NC 88.0 177.4 91.0 REMARK 620 5 HEM B 601 ND 92.0 91.6 176.6 89.6 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RTZ A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RTZ B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QM4 RELATED DB: PDB REMARK 900 3QM4 CONTAINS THE SAME PROTEIN COMPLEXED WITH PRINOMASTAT REMARK 900 RELATED ID: 3TBG RELATED DB: PDB REMARK 900 3TBG CONTAINS THE SAME PROTEIN IN OPEN CONFORMATION COMPLEXED WITH REMARK 900 2 MOLECULES OF THIORIDAZINE REMARK 900 RELATED ID: 3TDA RELATED DB: PDB REMARK 900 3TDA CONTAINS THE SAME PROTEIN COMPLEXED WITH PRINOMASTAT REMARK 900 RELATED ID: 2F9Q RELATED DB: PDB REMARK 900 2F9Q CONTAINS THE V374V VARIANT OF THE PROTEIN CRYSTALLIZED IN AN REMARK 900 OPEN FORM REMARK 900 RELATED ID: 4WNV RELATED DB: PDB REMARK 900 RELATED ID: 4WNU RELATED DB: PDB REMARK 900 RELATED ID: 4WNT RELATED DB: PDB DBREF 4WNW A 34 497 UNP P10635 CP2D6_HUMAN 34 497 DBREF 4WNW B 34 497 UNP P10635 CP2D6_HUMAN 34 497 SEQADV 4WNW MET A 23 UNP P10635 INITIATING METHIONINE SEQADV 4WNW ALA A 24 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS A 25 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS A 26 UNP P10635 EXPRESSION TAG SEQADV 4WNW THR A 27 UNP P10635 EXPRESSION TAG SEQADV 4WNW SER A 28 UNP P10635 EXPRESSION TAG SEQADV 4WNW SER A 29 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS A 30 UNP P10635 EXPRESSION TAG SEQADV 4WNW GLY A 31 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS A 32 UNP P10635 EXPRESSION TAG SEQADV 4WNW LEU A 33 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS A 498 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS A 499 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS A 500 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS A 501 UNP P10635 EXPRESSION TAG SEQADV 4WNW MET B 23 UNP P10635 INITIATING METHIONINE SEQADV 4WNW ALA B 24 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS B 25 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS B 26 UNP P10635 EXPRESSION TAG SEQADV 4WNW THR B 27 UNP P10635 EXPRESSION TAG SEQADV 4WNW SER B 28 UNP P10635 EXPRESSION TAG SEQADV 4WNW SER B 29 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS B 30 UNP P10635 EXPRESSION TAG SEQADV 4WNW GLY B 31 UNP P10635 EXPRESSION TAG SEQADV 4WNW LYS B 32 UNP P10635 EXPRESSION TAG SEQADV 4WNW LEU B 33 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS B 498 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS B 499 UNP P10635 EXPRESSION TAG SEQADV 4WNW HIS B 500 UNP P10635 EXPRESSION TAG SEQADV 4WNW 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 601 43 HET RTZ A 602 50 HET NA A 603 1 HET HEM B 601 43 HET RTZ B 602 50 HET NA B 603 1 HET NI B 604 1 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM RTZ 10-{2-[(2R)-1-METHYLPIPERIDIN-2-YL]ETHYL}-2- HETNAM 2 RTZ (METHYLSULFANYL)-10H-PHENOTHIAZINE HETNAM NA SODIUM ION HETNAM NI NICKEL (II) ION HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 RTZ 2(C21 H26 N2 S2) FORMUL 5 NA 2(NA 1+) FORMUL 9 NI NI 2+ HELIX 1 AA1 ASN A 53 ARG A 63 1 11 HELIX 2 AA2 GLY A 83 VAL A 92 1 10 HELIX 3 AA3 HIS A 94 THR A 98 5 5 HELIX 4 AA4 VAL A 104 ILE A 109 5 6 HELIX 5 AA5 GLY A 125 LEU A 142 1 18 HELIX 6 AA6 SER A 148 ASN A 166 1 19 HELIX 7 AA7 PRO A 174 GLY A 192 1 19 HELIX 8 AA8 ASP A 199 GLU A 216 1 18 HELIX 9 AA9 GLY A 218 VAL A 227 1 10 HELIX 10 AB1 PRO A 228 LEU A 231 5 4 HELIX 11 AB2 ILE A 233 VAL A 240 1 8 HELIX 12 AB3 LEU A 241 TRP A 262 1 22 HELIX 13 AB4 ASP A 270 ALA A 282 1 13 HELIX 14 AB5 ASN A 291 LEU A 323 1 33 HELIX 15 AB6 HIS A 324 ILE A 339 1 16 HELIX 16 AB7 GLU A 346 HIS A 352 5 7 HELIX 17 AB8 MET A 353 ASP A 368 1 16 HELIX 18 AB9 ASN A 398 LYS A 404 1 7 HELIX 19 AC1 HIS A 416 LEU A 421 5 6 HELIX 20 AC2 GLY A 445 PHE A 464 1 20 HELIX 21 AC3 LEU B 43 HIS B 48 5 6 HELIX 22 AC4 ASN B 53 GLY B 66 1 14 HELIX 23 AC5 ASN B 82 VAL B 92 1 11 HELIX 24 AC6 HIS B 94 ALA B 99 5 6 HELIX 25 AC7 VAL B 104 ILE B 109 5 6 HELIX 26 AC8 GLY B 125 LEU B 142 1 18 HELIX 27 AC9 LEU B 149 ASN B 166 1 18 HELIX 28 AD1 ARG B 173 GLY B 192 1 20 HELIX 29 AD2 ASP B 199 GLU B 215 1 17 HELIX 30 AD3 GLY B 218 VAL B 227 1 10 HELIX 31 AD4 LEU B 241 TRP B 262 1 22 HELIX 32 AD5 ASP B 270 ALA B 282 1 13 HELIX 33 AD6 ASN B 291 LEU B 323 1 33 HELIX 34 AD7 HIS B 324 ILE B 339 1 16 HELIX 35 AD8 GLU B 346 HIS B 352 5 7 HELIX 36 AD9 MET B 353 ASP B 368 1 16 HELIX 37 AE1 ASN B 398 LYS B 404 1 7 HELIX 38 AE2 HIS B 416 LEU B 421 5 6 HELIX 39 AE3 GLY B 445 HIS B 463 1 19 SHEET 1 AA1 4 VAL A 68 LEU A 73 0 SHEET 2 AA1 4 THR A 76 LEU A 81 -1 O VAL A 80 N PHE A 69 SHEET 3 AA1 4 THR A 394 THR A 397 1 O THR A 394 N PRO A 77 SHEET 4 AA1 4 HIS A 376 MET A 377 -1 N HIS A 376 O LEU A 395 SHEET 1 AA2 2 ILE A 382 VAL A 384 0 SHEET 2 AA2 2 PHE A 387 ILE A 389 -1 O ILE A 389 N ILE A 382 SHEET 1 AA3 2 SER A 465 SER A 467 0 SHEET 2 AA3 2 CYS A 493 VAL A 495 -1 O CYS A 493 N SER A 467 SHEET 1 AA4 2 GLY A 479 PHE A 481 0 SHEET 2 AA4 2 VAL A 485 PRO A 487 -1 O SER A 486 N VAL A 480 SHEET 1 AA5 4 SER B 70 GLN B 72 0 SHEET 2 AA5 4 PRO B 77 LEU B 81 -1 O VAL B 78 N LEU B 71 SHEET 3 AA5 4 THR B 394 THR B 397 1 O ILE B 396 N LEU B 81 SHEET 4 AA5 4 HIS B 376 MET B 377 -1 N HIS B 376 O LEU B 395 SHEET 1 AA6 2 ILE B 382 VAL B 384 0 SHEET 2 AA6 2 PHE B 387 ILE B 389 -1 O ILE B 389 N ILE B 382 SHEET 1 AA7 2 SER B 465 SER B 467 0 SHEET 2 AA7 2 CYS B 493 VAL B 495 -1 O CYS B 493 N SER B 467 SHEET 1 AA8 2 GLY B 479 PHE B 481 0 SHEET 2 AA8 2 VAL B 485 PRO B 487 -1 O SER B 486 N VAL B 480 LINK OE2 GLU A 216 NA NA A 603 1555 1555 3.19 LINK SG CYS A 443 FE HEM A 601 1555 1555 2.23 LINK OE2 GLU B 216 NA NA B 603 1555 1555 2.72 LINK NE2 HIS B 258 NI NI B 604 1555 1555 2.21 LINK OD2 ASP B 270 NI NI B 604 1555 1555 2.42 LINK OE1 GLU B 273 NI NI B 604 1555 1555 2.43 LINK SG CYS B 443 FE HEM B 601 1555 1555 2.24 LINK OE1 GLU B 287 NI NI B 604 1555 4545 2.66 LINK OE2 GLU B 287 NI NI B 604 1555 4545 2.69 SITE 1 AC1 20 ARG A 101 VAL A 119 PHE A 120 TRP A 128 SITE 2 AC1 20 ARG A 132 ILE A 186 ALA A 305 GLY A 306 SITE 3 AC1 20 THR A 309 THR A 313 VAL A 374 HIS A 376 SITE 4 AC1 20 LEU A 399 PRO A 435 PHE A 436 SER A 437 SITE 5 AC1 20 ARG A 441 CYS A 443 GLY A 445 LEU A 448 SITE 1 AC2 14 PHE A 112 PHE A 120 ALA A 209 GLY A 212 SITE 2 AC2 14 LEU A 213 GLU A 216 GLN A 244 PHE A 247 SITE 3 AC2 14 ASP A 301 SER A 304 ALA A 305 VAL A 308 SITE 4 AC2 14 VAL A 374 PHE A 483 SITE 1 AC3 1 GLU A 216 SITE 1 AC4 19 ARG B 101 VAL B 119 PHE B 120 TRP B 128 SITE 2 AC4 19 ARG B 132 LEU B 302 ALA B 305 GLY B 306 SITE 3 AC4 19 THR B 309 THR B 313 VAL B 374 HIS B 376 SITE 4 AC4 19 LEU B 399 PRO B 435 PHE B 436 SER B 437 SITE 5 AC4 19 ARG B 441 CYS B 443 GLY B 445 SITE 1 AC5 14 PHE B 112 PHE B 120 LEU B 121 ALA B 209 SITE 2 AC5 14 GLY B 212 LEU B 213 GLU B 216 GLN B 244 SITE 3 AC5 14 ALA B 300 ASP B 301 SER B 304 ALA B 305 SITE 4 AC5 14 VAL B 308 PHE B 483 SITE 1 AC6 2 GLU B 216 ARG B 221 SITE 1 AC7 4 HIS B 258 ASP B 270 GLU B 273 GLU B 287 CRYST1 194.190 55.349 145.223 90.00 134.19 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 0.005150 0.000000 0.005005 0.00000 SCALE2 0.000000 0.018067 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009603 0.00000