4NY4 Oxidoreductase Oxidoreductase Inhibitor date Dec 10, 2013
title Crystal Structure Of Cyp3a4 In Complex With An Inhibitor
authors G.Branden, T.Sjogren, Y.Xue
compound source
Molecule: Cytochrome P450 3a4
Chain: A
Fragment: Unp Residues 24-503
Synonym: 1,8-Cineole 2-Exo-Monooxygenase, Albendazole Monoo Albendazole Sulfoxidase, Cypiiia3, Cypiiia4, Cytochrome P45 Cytochrome P450 Hlp, Cytochrome P450 Nf-25, Cytochrome P450 Nifedipine Oxidase, Quinine 3-Monooxygenase, Taurochenodeox 6-Alpha-Hydroxylase;
Ec: 1.14.13.-, 1.14.13.157, 1.14.13.32, 1.14.13.67, 1.14.13
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cyp3a3, Cyp3a4, Cyp3a4 Cyp3a3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1 Blue
symmetry Space Group: I 2 2 2
R_factor 0.249 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.548 101.692 132.422 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.95 Å
ligand 2QH, HEM enzyme Oxidoreductase E.C.1.14.13 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • vitamin D3 25-hydroxylase ac...


  • Primary referenceStructure-based ligand design to overcome CYP inhibition in drug discovery projects., Branden G, Sjogren T, Schnecke V, Xue Y, Drug Discov Today. 2014 Jul;19(7):905-911. doi: 10.1016/j.drudis.2014.03.012., Epub 2014 Mar 16. PMID:24642031
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk]
  • Biological Unit Coordinates (4ny4.pdb1.gz) 163 Kb
  • Biological Unit Coordinates (4ny4.pdb2.gz) 647 Kb
  • LPC: Ligand-Protein Contacts for 4NY4
  • CSU: Contacts of Structural Units for 4NY4
  • Structure Factors (241 Kb)
  • Retrieve 4NY4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4NY4 from S2C, [Save to disk]
  • Re-refined 4ny4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4NY4 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4NY4
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4NY4, from MSDmotif at EBI
  • Fold representative 4ny4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ny4_A] [4ny4]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4NY4
  • Community annotation for 4NY4 at PDBWiki (http://pdbwiki.org)

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