1Z11

Crystal Structure of Human Microsomal P450 2A6 with Methoxsalen Bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structures of human microsomal cytochrome P450 2A6 complexed with coumarin and methoxsalen

Yano, J.K.Hsu, M.H.Griffin, K.J.Stout, C.D.Johnson, E.F.

(2005) Nat Struct Mol Biol 12: 822-823

  • DOI: 10.1038/nsmb971
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Human microsomal cytochrome P450 2A6 (CYP2A6) contributes extensively to nicotine detoxication but also activates tobacco-specific procarcinogens to mutagenic products. The CYP2A6 structure shows a compact, hydrophobic active site with one hydrogen b ...

    Human microsomal cytochrome P450 2A6 (CYP2A6) contributes extensively to nicotine detoxication but also activates tobacco-specific procarcinogens to mutagenic products. The CYP2A6 structure shows a compact, hydrophobic active site with one hydrogen bond donor, Asn297, that orients coumarin for regioselective oxidation. The inhibitor methoxsalen effectively fills the active site cavity without substantially perturbing the structure. The structure should aid the design of inhibitors to reduce smoking and tobacco-related cancers.


    Organizational Affiliation

    Department of Molecular and Experimental Medicine, Scripps Research Institute, La Jolla, California 92037, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
cytochrome P450, family 2, subfamily A, polypeptide 6
A, B, C, D
476Homo sapiensMutation(s): 0 
Gene Names: CYP2A6CYP2A3
EC: 1.14.14.1 (PDB Primary Data), 1.14.13 (UniProt)
Find proteins for P11509 (Homo sapiens)
Go to UniProtKB:  P11509
NIH Common Fund Data Resources
PHAROS  P11509
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download CCD File 
A, B, C, D
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
8MO
Query on 8MO

Download CCD File 
A, B, C, D
METHOXSALEN
C12 H8 O4
QXKHYNVANLEOEG-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
8MOKi:  1900   nM  BindingDB
8MOKi:  250   nM  BindingDB
8MOKd:  11000   nM  BindingDB
8MOKd:  1600   nM  BindingDB
8MOKi:  800   nM  BindingDB
8MOKi:  40   nM  BindingDB
8MOKd:  1900   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.66α = 90
b = 159.03β = 92
c = 103.88γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
AMoREphasing
CNSrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-08-16
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance