Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 56097.97 
• Atom Count: 3660 
• Residue Count: 485 
• Unique protein chains: 1

1W0E

Crystal structure of human cytochrome P450 3A4

• DOI: 10.2210/pdb1W0E/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2004-06-03 Released: 2004-07-22 
• Deposition Author(s): Williams, P.A., Cosme, J., Vinkovic, D.M., Ward, A., Angove, H.C., Day, P.J., Vonrhein, C., Tickle, I.J., Jhoti, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.274 
• R-Value Work: 0.244 

Literature

Crystal Structures of Human Cytochrome P450 3A4 Bound to Metyrapone and Progesterone

Williams, P.A., Cosme, J., Vinkovic, D.M., Ward, A., Angove, H.C., Day, P.J., Vonrhein, C., Tickle, I.J., Jhoti, H.

(2004) Science 305: 683

• PubMed: 15256616 
• DOI: 10.1126/science.1099736
• Primary Citation of Related Structures:  
  1W0G, 1W0F


• PubMed Abstract: 
  

Cytochromes P450 (P450s) metabolize a wide range of endogenous compounds and xenobiotics, such as pollutants, environmental compounds, and drug molecules. The microsomal, membrane-associated, P450 isoforms CYP3A4, CYP2D6, CYP2C9, CYP2C19, CYP2E1, and CYP1A2 are responsible for the oxidative metabolism of more than 90% of marketed drugs. Cytochrome P450 3A4 (CYP3A4) metabolizes more drug molecules than all other isoforms combined. Here we report three crystal structures of CYP3A4: unliganded, bound to the inhibitor metyrapone, and bound to the substrate progesterone. The structures revealed a surprisingly small active site, with little conformational change associated with the binding of either compound. An unexpected peripheral binding site is identified, located above a phenylalanine cluster, which may be involved in the initial recognition of substrates or allosteric effectors.

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Organizational Affiliation: 

Astex Technology, 436 Cambridge Science Park, Milton Road, Cambridge, CB4 0QA, UK.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
CYTOCHROME P450 3A4	A	485	Homo sapiens	Mutation(s): 0  Gene Names: CYP3A4 (CYP3A3) EC: 1.14.14.1
Find proteins for P08684 (Homo sapiens) Go to Gene View: CYP3A4 Go to UniProtKB:  P08684

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
HEM	A	PROTOPORPHYRIN IX CONTAINING FE HEME C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.274 
• R-Value Work: 0.244 
• Space Group: I 2 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 77.940	α = 90.00
b = 100.910	β = 90.00
c = 131.000	γ = 90.00

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
CNX	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-06-03 
• Released Date: 2004-07-22 
• Deposition Author(s): Williams, P.A., Cosme, J., Vinkovic, D.M., Ward, A., Angove, H.C., Day, P.J., Vonrhein, C., Tickle, I.J., Jhoti, H.

Revision History 

• Version 1.0: 2004-07-22
  Type: Initial release
• Version 1.1: 2011-05-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance