1FAG

STRUCTURE OF CYTOCHROME P450


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.353 
  • R-Value Work: 0.246 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure of the cytochrome p450BM-3 haem domain complexed with the fatty acid substrate, palmitoleic acid.

Li, H.Poulos, T.L.

(1997) Nat.Struct.Mol.Biol. 4: 140-146


  • PubMed Abstract: 
  • The substrate-bound structures of two cytochrome P450s, P450cam and P450eryF, are known. While these structures reveal important features that control substrate specificity, the problem of how conformational changes allow for substrate entry and prod ...

    The substrate-bound structures of two cytochrome P450s, P450cam and P450eryF, are known. While these structures reveal important features that control substrate specificity, the problem of how conformational changes allow for substrate entry and product release remains unsolved. The structure of the haem domain of the bacterial fatty acid hydroxylase, P450BM-3, previously was solved in the substrate-free form. Unlike the substrate-bound P450cam and P450eryF structures, the substrate access channel is open in substrate-free P450BM-3. Here we present the X-ray structure of P450BM-3 at 2.7 A bound with a fatty acid substrate, palmitoleic acid. A comparison of the substrate-bound and -free forms reveals major conformational differences and provides the first detailed picture of substrate-induced conformational changes in a P450.


    Related Citations: 
    • Crystal Structure of Hemoprotein Domain of P450Bm-3, a Prototype for Microsomal P450'S
      Ravichandran, K.G.,Boddupalli, S.S.,Hasemann, C.A.,Peterson, J.A.,Deisenhofer, J.
      (1993) Science 261: 731
    • Comformational Dynamics in Cytochrome P450-Substrate Interactions
      Li, H.Y.,Poulos, T.L.
      () TO BE PUBLISHED --: --
    • Modeling Protein-Substrate Interactions in the Heme Domain of Cytochrome P450Bm-3
      Li, H.Y.,Poulos, T.L.
      (1995) Acta Crystallogr.,Sect.D 51: 21


    Organizational Affiliation

    Department of Molecular Biology and Biochemistry, University of California at Irvine 92697, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CYTOCHROME P450 BM-3
A, B, C, D
471Bacillus megaterium (strain ATCC 14581 / DSM 32 / JCM 2506 / NBRC 15308 / NCIMB 9376 / NCTC 10342 / VKM B-512)Mutation(s): 0 
Gene Names: cyp102A1 (cyp102)
Find proteins for P14779 (Bacillus megaterium (strain ATCC 14581 / DSM 32 / JCM 2506 / NBRC 15308 / NCIMB 9376 / NCTC 10342 / VKM B-512))
Go to UniProtKB:  P14779
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

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

Download SDF File 
Download CCD File 
A, B, C, D
PALMITOLEIC ACID
C16 H30 O2
SECPZKHBENQXJG-FPLPWBNLSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.353 
  • R-Value Work: 0.246 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 106.200α = 90.00
b = 165.200β = 90.00
c = 223.900γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
DENZOdata reduction
ROTAVATAdata scaling
TRUNCATE)data scaling
X-PLORrefinement
CCP4data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1996-08-01 
  • Released Date: 1997-02-12 
  • Deposition Author(s): Li, H.Y., Poulos, T.L.

Revision History 

  • Version 1.0: 1997-02-12
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance