HEADER OXIDOREDUCTASE 19-NOV-14 4D75 TITLE CYTOCHROME P450 3A4 BOUND TO AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 3A4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 23-503; COMPND 5 SYNONYM: 1,8-CINEOLE 2-EXO-MONOOXYGENASE, ALBENDAZOLE MONOOXYGENASE, COMPND 6 ALBENDAZOLE SULFOXIDASE, CYPIIIA3, CYPIIIA4, CYTOCHROME P450 3A3, COMPND 7 CYTOCHROME P450 HLP, CYTOCHROME P450 NF-25, CYTOCHROME P450-PCN1, COMPND 8 NIFEDIPINE OXIDASE, QUININE 3-MONOOXYGENASE, TAUROCHENODEOXYCHOLATE COMPND 9 6-ALPHA-HYDROXYLASE; COMPND 10 EC: 1.14.13.157, 1.14.13.32, 1.14.13.67, 1.14.13.97; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PCWORI KEYWDS OXIDOREDUCTASE, MONOOXYGENASE, INHIBITORY COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.SEVRIOUKOVA,T.POULOS REVDAT 5 20-DEC-23 4D75 1 REMARK REVDAT 4 30-JAN-19 4D75 1 REMARK REVDAT 3 25-MAY-16 4D75 1 JRNL REVDAT 2 30-SEP-15 4D75 1 JRNL REVDAT 1 23-SEP-15 4D75 0 JRNL AUTH P.KAUR,R.CHAMBERLIN,T.L.POULOS,I.F.SEVRIOUKOVA JRNL TITL STRUCTURE-BASED INHIBITOR DESIGN FOR EVALUATION OF A CYP3A4 JRNL TITL 2 PHARMACOPHORE MODEL. JRNL REF J.MED.CHEM. V. 59 4210 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 26371436 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01146 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 79.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 24385 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1245 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 79.5109 - 4.6802 0.99 2718 132 0.1645 0.2100 REMARK 3 2 4.6802 - 3.7148 0.99 2583 139 0.1678 0.2112 REMARK 3 3 3.7148 - 3.2452 1.00 2555 149 0.2155 0.2815 REMARK 3 4 3.2452 - 2.9485 1.00 2555 145 0.2414 0.2933 REMARK 3 5 2.9485 - 2.7372 1.00 2553 142 0.2478 0.3587 REMARK 3 6 2.7372 - 2.5758 1.00 2541 135 0.2509 0.3001 REMARK 3 7 2.5758 - 2.4468 1.00 2558 138 0.2554 0.3078 REMARK 3 8 2.4468 - 2.3402 1.00 2521 132 0.2750 0.2861 REMARK 3 9 2.3402 - 2.2501 1.00 2556 133 0.2932 0.3236 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.330 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.012 3921 REMARK 3 ANGLE : 1.661 5317 REMARK 3 CHIRALITY : 0.060 583 REMARK 3 PLANARITY : 0.008 671 REMARK 3 DIHEDRAL : 16.269 1493 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -18.9348 -23.8528 -13.5899 REMARK 3 T TENSOR REMARK 3 T11: 0.3392 T22: 0.3589 REMARK 3 T33: 0.3320 T12: -0.0141 REMARK 3 T13: 0.0599 T23: -0.0229 REMARK 3 L TENSOR REMARK 3 L11: 1.0163 L22: 2.4469 REMARK 3 L33: 1.0086 L12: -0.9483 REMARK 3 L13: -0.3338 L23: 0.6180 REMARK 3 S TENSOR REMARK 3 S11: -0.1051 S12: -0.0112 S13: -0.0386 REMARK 3 S21: 0.2634 S22: -0.0569 S23: 0.0333 REMARK 3 S31: 0.1624 S32: 0.0127 S33: -0.0089 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUES 263-266 AND 282-286 DISORDERED REMARK 4 REMARK 4 4D75 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1290062348. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24435 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 79.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 1.12000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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 4D6Z REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION SITTING DROP AGAINST REMARK 280 80% OF THE E3 SOLUTION FROM MORPHEUS CRYSTALLIZATION KIT REMARK 280 (MOLECULAR DIMENSIONS), PH 7, VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 38.54500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.87500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.72500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.54500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.87500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.72500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.54500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.87500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.72500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.54500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.87500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.72500 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 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 21 REMARK 465 ALA A 22 REMARK 465 TYR A 23 REMARK 465 LEU A 24 REMARK 465 TYR A 25 REMARK 465 GLY A 26 REMARK 465 THR A 27 REMARK 465 ASP A 263 REMARK 465 THR A 264 REMARK 465 GLN A 265 REMARK 465 LYS A 266 REMARK 465 ALA A 282 REMARK 465 GLU A 283 REMARK 465 THR A 284 REMARK 465 ALA A 285 REMARK 465 SER A 286 REMARK 465 ASP A 497 REMARK 465 GLY A 498 REMARK 465 THR A 499 REMARK 465 VAL A 500 REMARK 465 SER A 501 REMARK 465 GLY A 502 REMARK 465 ALA A 503 REMARK 465 HIS A 504 REMARK 465 HIS A 505 REMARK 465 HIS A 506 REMARK 465 HIS A 507 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O VAL A 183 OG1 THR A 187 2.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS A 168 NZ LYS A 168 2445 1.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS A 209 N - CA - C ANGL. DEV. = 18.6 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 PHE A 46 -61.48 65.86 REMARK 500 PHE A 102 61.95 -109.25 REMARK 500 ASP A 123 -116.48 36.51 REMARK 500 PHE A 203 -73.36 -57.09 REMARK 500 THR A 207 47.19 -90.85 REMARK 500 LYS A 209 178.97 86.38 REMARK 500 LEU A 210 109.70 -24.46 REMARK 500 PHE A 226 67.36 -111.83 REMARK 500 MET A 256 -5.62 -56.39 REMARK 500 LEU A 261 2.27 -67.43 REMARK 500 ARG A 268 154.37 68.93 REMARK 500 VAL A 269 44.22 -147.95 REMARK 500 LYS A 288 -150.83 36.98 REMARK 500 ALA A 289 67.03 71.94 REMARK 500 LYS A 342 39.31 70.09 REMARK 500 MET A 371 -45.85 71.10 REMARK 500 PRO A 405 -3.46 -49.76 REMARK 500 GLU A 410 72.07 46.50 REMARK 500 LYS A 421 -35.64 -38.69 REMARK 500 PRO A 429 7.86 -67.76 REMARK 500 CYS A 468 -158.05 -158.02 REMARK 500 THR A 471 108.28 -52.58 REMARK 500 GLN A 472 108.71 -56.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 206 THR A 207 134.51 REMARK 500 THR A 207 LYS A 208 147.08 REMARK 500 LYS A 208 LYS A 209 121.69 REMARK 500 LYS A 209 LEU A 210 132.01 REMARK 500 GLU A 470 THR A 471 -139.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 446 0.24 SIDE CHAIN 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 442 SG REMARK 620 2 HEM A 601 NA 96.2 REMARK 620 3 HEM A 601 NB 89.3 88.1 REMARK 620 4 HEM A 601 NC 89.8 173.6 90.1 REMARK 620 5 HEM A 601 ND 94.7 91.1 175.9 90.3 REMARK 620 6 PK9 A 600 N22 171.4 82.7 82.1 91.0 93.8 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PK9 A 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4D6Z RELATED DB: PDB REMARK 900 CYTOCHROME P450 3A4 BOUND TO IMIDAZOLE AND AN INHIBITOR REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 3-22 DELETED MUTATIONS K282A AND E285A 4- REMARK 999 HISTIDINE C-TERMINAL TAG DBREF 4D75 A 23 503 UNP P08684 CP3A4_HUMAN 23 503 SEQADV 4D75 MET A 21 UNP P08684 EXPRESSION TAG SEQADV 4D75 ALA A 22 UNP P08684 EXPRESSION TAG SEQADV 4D75 HIS A 504 UNP P08684 EXPRESSION TAG SEQADV 4D75 HIS A 505 UNP P08684 EXPRESSION TAG SEQADV 4D75 HIS A 506 UNP P08684 EXPRESSION TAG SEQADV 4D75 HIS A 507 UNP P08684 EXPRESSION TAG SEQADV 4D75 ALA A 282 UNP P08684 LYS 282 ENGINEERED MUTATION SEQADV 4D75 ALA A 285 UNP P08684 GLU 285 ENGINEERED MUTATION SEQRES 1 A 487 MET ALA TYR LEU TYR GLY THR HIS SER HIS GLY LEU PHE SEQRES 2 A 487 LYS LYS LEU GLY ILE PRO GLY PRO THR PRO LEU PRO PHE SEQRES 3 A 487 LEU GLY ASN ILE LEU SER TYR HIS LYS GLY PHE CYS MET SEQRES 4 A 487 PHE ASP MET GLU CYS HIS LYS LYS TYR GLY LYS VAL TRP SEQRES 5 A 487 GLY PHE TYR ASP GLY GLN GLN PRO VAL LEU ALA ILE THR SEQRES 6 A 487 ASP PRO ASP MET ILE LYS THR VAL LEU VAL LYS GLU CYS SEQRES 7 A 487 TYR SER VAL PHE THR ASN ARG ARG PRO PHE GLY PRO VAL SEQRES 8 A 487 GLY PHE MET LYS SER ALA ILE SER ILE ALA GLU ASP GLU SEQRES 9 A 487 GLU TRP LYS ARG LEU ARG SER LEU LEU SER PRO THR PHE SEQRES 10 A 487 THR SER GLY LYS LEU LYS GLU MET VAL PRO ILE ILE ALA SEQRES 11 A 487 GLN TYR GLY ASP VAL LEU VAL ARG ASN LEU ARG ARG GLU SEQRES 12 A 487 ALA GLU THR GLY LYS PRO VAL THR LEU LYS ASP VAL PHE SEQRES 13 A 487 GLY ALA TYR SER MET ASP VAL ILE THR SER THR SER PHE SEQRES 14 A 487 GLY VAL ASN ILE ASP SER LEU ASN ASN PRO GLN ASP PRO SEQRES 15 A 487 PHE VAL GLU ASN THR LYS LYS LEU LEU ARG PHE ASP PHE SEQRES 16 A 487 LEU ASP PRO PHE PHE LEU SER ILE THR VAL PHE PRO PHE SEQRES 17 A 487 LEU ILE PRO ILE LEU GLU VAL LEU ASN ILE CYS VAL PHE SEQRES 18 A 487 PRO ARG GLU VAL THR ASN PHE LEU ARG LYS SER VAL LYS SEQRES 19 A 487 ARG MET LYS GLU SER ARG LEU GLU ASP THR GLN LYS HIS SEQRES 20 A 487 ARG VAL ASP PHE LEU GLN LEU MET ILE ASP SER GLN ASN SEQRES 21 A 487 SER ALA GLU THR ALA SER HIS LYS ALA LEU SER ASP LEU SEQRES 22 A 487 GLU LEU VAL ALA GLN SER ILE ILE PHE ILE PHE ALA GLY SEQRES 23 A 487 TYR GLU THR THR SER SER VAL LEU SER PHE ILE MET TYR SEQRES 24 A 487 GLU LEU ALA THR HIS PRO ASP VAL GLN GLN LYS LEU GLN SEQRES 25 A 487 GLU GLU ILE ASP ALA VAL LEU PRO ASN LYS ALA PRO PRO SEQRES 26 A 487 THR TYR ASP THR VAL LEU GLN MET GLU TYR LEU ASP MET SEQRES 27 A 487 VAL VAL ASN GLU THR LEU ARG LEU PHE PRO ILE ALA MET SEQRES 28 A 487 ARG LEU GLU ARG VAL CYS LYS LYS ASP VAL GLU ILE ASN SEQRES 29 A 487 GLY MET PHE ILE PRO LYS GLY VAL VAL VAL MET ILE PRO SEQRES 30 A 487 SER TYR ALA LEU HIS ARG ASP PRO LYS TYR TRP THR GLU SEQRES 31 A 487 PRO GLU LYS PHE LEU PRO GLU ARG PHE SER LYS LYS ASN SEQRES 32 A 487 LYS ASP ASN ILE ASP PRO TYR ILE TYR THR PRO PHE GLY SEQRES 33 A 487 SER GLY PRO ARG ASN CYS ILE GLY MET ARG PHE ALA LEU SEQRES 34 A 487 MET ASN MET LYS LEU ALA LEU ILE ARG VAL LEU GLN ASN SEQRES 35 A 487 PHE SER PHE LYS PRO CYS LYS GLU THR GLN ILE PRO LEU SEQRES 36 A 487 LYS LEU SER LEU GLY GLY LEU LEU GLN PRO GLU LYS PRO SEQRES 37 A 487 VAL VAL LEU LYS VAL GLU SER ARG ASP GLY THR VAL SER SEQRES 38 A 487 GLY ALA HIS HIS HIS HIS HET PK9 A 600 23 HET HEM A 601 43 HETNAM PK9 TERT-BUTYL {6-OXO-6-[(PYRIDIN-3-YLMETHYL) HETNAM 2 PK9 AMINO]HEXYL}CARBAMATE HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 PK9 C17 H27 N3 O3 FORMUL 3 HEM C34 H32 FE N4 O4 FORMUL 4 HOH *17(H2 O) HELIX 1 1 GLY A 31 LEU A 36 1 6 HELIX 2 2 ASN A 49 LYS A 55 5 7 HELIX 3 3 GLY A 56 GLY A 69 1 14 HELIX 4 4 ASP A 86 VAL A 95 1 10 HELIX 5 5 VAL A 111 ALA A 117 5 7 HELIX 6 6 GLU A 122 SER A 134 1 13 HELIX 7 7 PRO A 135 PHE A 137 5 3 HELIX 8 8 THR A 138 GLU A 144 1 7 HELIX 9 9 MET A 145 GLU A 165 1 21 HELIX 10 10 LEU A 172 PHE A 189 1 18 HELIX 11 11 ASP A 201 THR A 207 1 7 HELIX 12 12 ASP A 217 PHE A 226 1 10 HELIX 13 13 LEU A 229 LEU A 236 1 8 HELIX 14 14 PRO A 242 MET A 256 1 15 HELIX 15 15 ASP A 270 ASP A 277 1 8 HELIX 16 16 SER A 291 TYR A 307 1 17 HELIX 17 17 TYR A 307 THR A 323 1 17 HELIX 18 18 HIS A 324 LEU A 339 1 16 HELIX 19 19 PRO A 340 ALA A 343 5 4 HELIX 20 20 THR A 346 MET A 353 1 8 HELIX 21 21 MET A 353 PHE A 367 1 15 HELIX 22 22 PRO A 397 ARG A 403 1 7 HELIX 23 23 LEU A 415 SER A 420 5 6 HELIX 24 24 ASN A 423 ILE A 427 5 5 HELIX 25 25 SER A 437 ASN A 441 5 5 HELIX 26 26 GLY A 444 ASN A 462 1 19 SHEET 1 AA 4 VAL A 71 ASP A 76 0 SHEET 2 AA 4 GLN A 79 ILE A 84 -1 O GLN A 79 N ASP A 76 SHEET 3 AA 4 VAL A 393 ILE A 396 1 O VAL A 393 N LEU A 82 SHEET 4 AA 4 LEU A 373 VAL A 376 -1 O LEU A 373 N ILE A 396 SHEET 1 AB 3 VAL A 170 THR A 171 0 SHEET 2 AB 3 VAL A 490 SER A 495 -1 O LEU A 491 N VAL A 170 SHEET 3 AB 3 PHE A 463 LYS A 466 -1 O SER A 464 N GLU A 494 SHEET 1 AC 2 VAL A 381 ILE A 383 0 SHEET 2 AC 2 MET A 386 ILE A 388 -1 O MET A 386 N ILE A 383 LINK SG CYS A 442 FE HEM A 601 1555 1555 2.39 LINK N22 PK9 A 600 FE HEM A 601 1555 1555 2.38 CISPEP 1 GLU A 258 SER A 259 0 0.07 CISPEP 2 ILE A 473 PRO A 474 0 -1.45 SITE 1 AC1 22 ARG A 105 ILE A 118 SER A 119 TRP A 126 SITE 2 AC1 22 ARG A 130 ALA A 305 GLY A 306 VAL A 313 SITE 3 AC1 22 ALA A 370 ARG A 375 PRO A 434 PHE A 435 SITE 4 AC1 22 GLY A 436 SER A 437 ARG A 440 ASN A 441 SITE 5 AC1 22 CYS A 442 ILE A 443 GLY A 444 ALA A 448 SITE 6 AC1 22 PK9 A 600 HOH A2007 SITE 1 AC2 8 ARG A 105 SER A 119 ARG A 212 PHE A 304 SITE 2 AC2 8 ALA A 305 THR A 309 ILE A 369 HEM A 601 CRYST1 77.090 99.750 131.450 90.00 90.00 90.00 I 2 2 2 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 0.012972 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010025 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007607 0.00000