2J4S

P450 BM3 heme domain in complex with DMSO

• PDB DOI: https://doi.org/10.2210/pdb2J4S/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Priestia megaterium
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2006-09-05 Released: 2007-05-15 
• Deposition Author(s): Kuper, J., Tuck-Seng, W., Roccatano, D., Wilmanns, M., Schwaneberg, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 

Literature

Understanding a Mechanism of Organic Cosolvent Inactivation in Heme Monooxygenase P450 Bm-3.

Kuper, J., Wong, T.S., Roccatano, D., Wilmanns, M., Schwaneberg, U.

(2007) J Am Chem Soc 129: 5786

• PubMed: 17429965 
• DOI: https://doi.org/10.1021/ja067036x
• Primary Citation of Related Structures:  
  2J1M, 2J4S

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Organizational Affiliation: 

EMBL-Hamburg Outstation, DESY, Hamburg, Germany.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 106.17 kDa 
• Atom Count: 7,866 
• Modelled Residue Count: 902 
• Deposited Residue Count: 910 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BIFUNCTIONAL P-450\:NADPH-P450 REDUCTASE	A, B	455	Priestia megaterium	Mutation(s): 0  EC: 1.14.14.1 (PDB Primary Data), 1.6.2.4 (UniProt)
UniProt
Find proteins for P14779 (Priestia megaterium (strain ATCC 14581 / DSM 32 / CCUG 1817 / JCM 2506 / NBRC 15308 / NCIMB 9376 / NCTC 10342 / NRRL B-14308 / VKM B-512 / Ford 19)) Explore P14779  Go to UniProtKB:  P14779

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	C [auth A], F [auth B]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
PEG	D [auth A], E [auth A], H [auth B], I [auth B], J [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
ZN	G [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.598	α = 90
b = 88.297	β = 90
c = 151.274	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
TRUNCATE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-15 
Deposition Author(s): Kuper, J., Tuck-Seng, W., Roccatano, D., Wilmanns, M., Schwaneberg, U.

Revision History  

• Version 1.0: 2007-05-15
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-07-24
  Changes: Data collection
• Version 1.4: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other