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(-) Description

Title :  CYTOCHROME P450 3A4 BOUND TO AN INHIBITOR
 
Authors :  I. Sevrioukova, T. Poulos
Date :  19 Nov 14  (Deposition) - 23 Sep 15  (Release) - 25 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Monooxygenase, Inhibitory Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Kaur, R. Chamberlin, T. L. Poulos, I. F. Sevrioukova
Structure-Based Inhibitor Design For Evaluation Of A Cyp3A4 Pharmacophore Model.
J. Med. Chem. V. 59 4210 2016
PubMed-ID: 26371436  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01146

(-) Compounds

Molecule 1 - CYTOCHROME P450 3A4
    Chains: A
    EC Number: 1.14.13.157, 1.14.13.32, 1.14.13.67, 1.14.13.97
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCWORI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Fragment: CATALYTIC DOMAIN, RESIDUES 23-503
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: 1,8-CINEOLE 2-EXO-MONOOXYGENASE, ALBENDAZOLE MONOOXYGENASE, ALBENDAZOLE SULFOXIDASE, CYPIIIA3, CYPIIIA4, CYTOCHROME P450 3A3, CYTOCHROME P450 HLP, CYTOCHROME P450 NF-25, CYTOCHROME P450-PCN1, NIFEDIPINE OXIDASE, QUININE 3-MONOOXYGENASE, TAUROCHENODEOXYCHOLATE 6-ALPHA-HYDROXYLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2PK91Ligand/IonTERT-BUTYL {6-OXO-6-[(PYRIDIN-3-YLMETHYL)AMINO]HEXYL}CARBAMATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:105 , ILE A:118 , SER A:119 , TRP A:126 , ARG A:130 , ALA A:305 , GLY A:306 , VAL A:313 , ALA A:370 , ARG A:375 , PRO A:434 , PHE A:435 , GLY A:436 , SER A:437 , ARG A:440 , ASN A:441 , CYS A:442 , ILE A:443 , GLY A:444 , ALA A:448 , PK9 A:600 , HOH A:2007BINDING SITE FOR RESIDUE HEM A 601
2AC2SOFTWAREARG A:105 , SER A:119 , ARG A:212 , PHE A:304 , ALA A:305 , THR A:309 , ILE A:369 , HEM A:601BINDING SITE FOR RESIDUE PK9 A 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4D75)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:258 -Ser A:259
2Ile A:473 -Pro A:474

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4D75)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4D75)

(-) Exons   (0, 0)

(no "Exon" information available for 4D75)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:460
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh............hhhhhhhhhhhhhhhhhhhhh.eeeeee..eeeeee.hhhhhhhhhh...............hhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhhhhhhh...........hhhhhhh.........hhhhhhhhhh..hhhhhhhh.....hhhhhhhhhhhhhhh.........hhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeee....eee..eee....eeeehhhhhhh...........hhhhhh..hhhhh.........hhhhh..hhhhhhhhhhhhhhhhhhheeee.......................eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d75 A  28 HSHGLFKKLGIPGPTPLPFLGNILSYHKGFCMFDMECHKKYGKVWGFYDGQQPVLAITDPDMIKTVLVKECYSVFTNRRPFGPVGFMKSAISIAEDEEWKRLRSLLSPTFTSGKLKEMVPIIAQYGDVLVRNLRREAETGKPVTLKDVFGAYSMDVITSTSFGVNIDSLNNPQDPFVENTKKLLRFDFLDPFFLSITVFPFLIPILEVLNICVFPREVTNFLRKSVKRMKESRLEHRVDFLQLMIDSQNSHKALSDLELVAQSIIFIFAGYETTSSVLSFIMYELATHPDVQQKLQEEIDAVLPNKAPPTYDTVLQMEYLDMVVNETLRLFPIAMRLERVCKKDVEINGMFIPKGVVVMIPSYALHRDPKYWTEPEKFLPERFSKKNKDNIDPYIYTPFGSGPRNCIGMRFALMNMKLALIRVLQNFSFKPCKETQIPLKLSLGGLLQPEKPVVLKVESR 496
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257    || 271       281|      296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496
                                                                                                                                                                                                                                                                    262|           281|                                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                     267            287
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4D75)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4D75)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4D75)

(-) Gene Ontology  (41, 41)

Asymmetric/Biological Unit(hide GO term definitions)

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  4d75
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  CP3A4_HUMAN | P08684
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  1.14.13.157
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  1.14.13.32
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  1.14.13.67
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  1.14.13.97
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CP3A4_HUMAN | P08684: 1tqn 1w0e 1w0f 1w0g 2j0d 2v0m 3nxu 3tjs 3ua1 4d6z 4d78 4d7d 4i3q 4i4g 4i4h 4k9t 4k9u 4k9v 4k9w 4k9x 4ny4 5a1p 5a1r 5g5j 5te8 5vc0 5vcc 5vcd 5vce 5vcg

(-) Related Entries Specified in the PDB File

4d6z CYTOCHROME P450 3A4 BOUND TO IMIDAZOLE AND AN INHIBITOR