HEADER OXIDOREDUCTASE 19-NOV-14 4D6Z TITLE CYTOCHROME P450 3A4 BOUND TO IMIDAZOLE AND AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 3A4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, UNP 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_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCWORI KEYWDS OXIDOREDUCTASE, MONOOXYGENASE, CYTOCHROME P450, HUMAN CYP3A4, KEYWDS 2 IMIDAZOLE, INHIBITORY COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.SEVRIOUKOVA,T.POULOS REVDAT 4 20-DEC-23 4D6Z 1 REMARK REVDAT 3 25-MAY-16 4D6Z 1 JRNL REVDAT 2 30-SEP-15 4D6Z 1 JRNL REVDAT 1 23-SEP-15 4D6Z 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. 1.93 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) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.910 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 38410 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1935 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 38.4992 - 4.6492 0.90 2512 133 0.1782 0.2059 REMARK 3 2 4.6492 - 3.6912 0.98 2625 131 0.1525 0.1806 REMARK 3 3 3.6912 - 3.2248 0.99 2633 134 0.1753 0.2654 REMARK 3 4 3.2248 - 2.9301 0.99 2641 147 0.1954 0.2638 REMARK 3 5 2.9301 - 2.7201 1.00 2617 144 0.1903 0.2506 REMARK 3 6 2.7201 - 2.5598 1.00 2624 136 0.1899 0.2749 REMARK 3 7 2.5598 - 2.4316 1.00 2612 126 0.1930 0.1906 REMARK 3 8 2.4316 - 2.3258 1.00 2634 135 0.1821 0.2185 REMARK 3 9 2.3258 - 2.2363 1.00 2582 145 0.1866 0.2428 REMARK 3 10 2.2363 - 2.1591 1.00 2583 151 0.1900 0.2520 REMARK 3 11 2.1591 - 2.0916 1.00 2603 139 0.1959 0.2378 REMARK 3 12 2.0916 - 2.0318 1.00 2590 138 0.1987 0.2176 REMARK 3 13 2.0318 - 1.9783 1.00 2597 143 0.2058 0.2634 REMARK 3 14 1.9783 - 1.9301 1.00 2622 133 0.2460 0.2920 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.21 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 : 0.008 3957 REMARK 3 ANGLE : 1.255 5372 REMARK 3 CHIRALITY : 0.051 590 REMARK 3 PLANARITY : 0.006 678 REMARK 3 DIHEDRAL : 15.297 1518 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): 19.4482 25.9639 -14.6248 REMARK 3 T TENSOR REMARK 3 T11: 0.2566 T22: 0.3214 REMARK 3 T33: 0.2453 T12: 0.0029 REMARK 3 T13: 0.0650 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 1.3839 L22: 3.0925 REMARK 3 L33: 1.2556 L12: -1.0422 REMARK 3 L13: -0.4080 L23: 0.7016 REMARK 3 S TENSOR REMARK 3 S11: -0.1335 S12: -0.1012 S13: -0.0930 REMARK 3 S21: 0.3478 S22: 0.0326 S23: -0.0458 REMARK 3 S31: 0.2531 S32: 0.1306 S33: 0.0983 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUES 280-288 DISORDERED REMARK 4 REMARK 4 4D6Z 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_1290062341. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JAN-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 : 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) : 1.127 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38419 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.53000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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 4I3Q REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CONDITION A3 FROM THE MORPHEUS REMARK 280 CRYSTALLIZATION KIT (MOLECULAR DIMENSIONS), PH 7 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 38.52500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.70000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.65000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.52500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.70000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.65000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.52500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.70000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.65000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.52500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.70000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 66.65000 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2136 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 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 HIS A 28 REMARK 465 ASN A 280 REMARK 465 SER A 281 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 HIS A 287 REMARK 465 LYS A 288 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: 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 -49.68 68.66 REMARK 500 VAL A 101 -43.55 -130.37 REMARK 500 PHE A 102 63.16 -116.40 REMARK 500 ASP A 123 -123.06 46.08 REMARK 500 PHE A 226 63.74 -118.06 REMARK 500 SER A 259 -1.38 -155.26 REMARK 500 GLU A 262 6.66 -67.24 REMARK 500 THR A 264 -60.66 76.34 REMARK 500 GLN A 265 100.85 -52.45 REMARK 500 LYS A 266 -20.27 179.00 REMARK 500 HIS A 267 -120.40 73.69 REMARK 500 ARG A 268 134.09 105.48 REMARK 500 MET A 371 -45.65 69.24 REMARK 500 MET A 371 -47.55 71.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2179 DISTANCE = 6.77 ANGSTROMS 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 A1500 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 442 SG REMARK 620 2 HEM A1500 NA 96.4 REMARK 620 3 HEM A1500 NB 91.4 87.3 REMARK 620 4 HEM A1500 NC 92.3 170.9 90.0 REMARK 620 5 HEM A1500 ND 96.0 90.3 172.5 91.3 REMARK 620 6 IMD A1601 N1 175.8 82.3 84.6 88.9 88.1 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 1500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PK9 A 1600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 1601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1605 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4D75 RELATED DB: PDB REMARK 900 CYTOCHROME P450 3A4 BOUND TO 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 4D6Z A 23 503 UNP P08684 CP3A4_HUMAN 23 503 SEQADV 4D6Z MET A 21 UNP P08684 EXPRESSION TAG SEQADV 4D6Z ALA A 22 UNP P08684 EXPRESSION TAG SEQADV 4D6Z HIS A 504 UNP P08684 EXPRESSION TAG SEQADV 4D6Z HIS A 505 UNP P08684 EXPRESSION TAG SEQADV 4D6Z HIS A 506 UNP P08684 EXPRESSION TAG SEQADV 4D6Z HIS A 507 UNP P08684 EXPRESSION TAG SEQADV 4D6Z ALA A 282 UNP P08684 LYS 282 ENGINEERED MUTATION SEQADV 4D6Z 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 HEM A1500 43 HET PK9 A1600 23 HET IMD A1601 5 HET GOL A1602 6 HET GOL A1603 6 HET GOL A1604 6 HET GOL A1605 6 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PK9 TERT-BUTYL {6-OXO-6-[(PYRIDIN-3-YLMETHYL) HETNAM 2 PK9 AMINO]HEXYL}CARBAMATE HETNAM IMD IMIDAZOLE HETNAM GOL GLYCEROL HETSYN HEM HEME HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 PK9 C17 H27 N3 O3 FORMUL 4 IMD C3 H5 N2 1+ FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *190(H2 O) HELIX 1 1 GLY A 31 GLY A 37 1 7 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 165 1 28 HELIX 9 9 LEU A 172 GLY A 190 1 19 HELIX 10 10 ASP A 201 LYS A 208 1 8 HELIX 11 11 ASP A 217 PHE A 226 1 10 HELIX 12 12 LEU A 229 LEU A 236 1 8 HELIX 13 13 PRO A 242 SER A 259 1 18 HELIX 14 14 ASP A 270 SER A 278 1 9 HELIX 15 15 SER A 291 LEU A 339 1 49 HELIX 16 16 THR A 346 GLN A 352 1 7 HELIX 17 17 MET A 353 PHE A 367 1 15 HELIX 18 18 PRO A 397 ARG A 403 1 7 HELIX 19 19 LEU A 415 SER A 420 5 6 HELIX 20 20 ASN A 423 ILE A 427 5 5 HELIX 21 21 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 PRO A 467 -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 A1500 1555 1555 2.43 LINK FE HEM A1500 N1 IMD A1601 1555 1555 2.42 CISPEP 1 ILE A 473 PRO A 474 0 -0.29 SITE 1 AC1 21 ARG A 105 ILE A 118 SER A 119 TRP A 126 SITE 2 AC1 21 ARG A 130 ALA A 305 ALA A 370 ARG A 375 SITE 3 AC1 21 PRO A 434 PHE A 435 GLY A 436 SER A 437 SITE 4 AC1 21 ARG A 440 ASN A 441 CYS A 442 ILE A 443 SITE 5 AC1 21 GLY A 444 ALA A 448 MET A 452 IMD A1601 SITE 6 AC1 21 HOH A2045 SITE 1 AC2 10 ARG A 105 SER A 119 ARG A 212 PHE A 215 SITE 2 AC2 10 PHE A 304 ILE A 369 ALA A 370 IMD A1601 SITE 3 AC2 10 HOH A2090 HOH A2150 SITE 1 AC3 4 ALA A 305 THR A 309 HEM A1500 PK9 A1600 SITE 1 AC4 10 LYS A 55 GLY A 56 PHE A 57 CYS A 58 SITE 2 AC4 10 MET A 371 SER A 478 GLY A 480 GLY A 481 SITE 3 AC4 10 LEU A 482 LEU A 483 SITE 1 AC5 6 PRO A 41 SER A 52 GLU A 63 LYS A 67 SITE 2 AC5 6 TYR A 68 HOH A2190 SITE 1 AC6 7 THR A 42 LEU A 44 ASN A 49 LEU A 51 SITE 2 AC6 7 SER A 52 HOH A2014 HOH A2190 SITE 1 AC7 5 TYR A 399 ARG A 403 GLU A 412 LEU A 475 SITE 2 AC7 5 LEU A 477 CRYST1 77.050 99.400 133.300 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 0.012979 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010060 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007502 0.00000