8VKF

The crystal structure of wild-type CYP199A4 bound to 4-propionylbenzoic acid

• PDB DOI: https://doi.org/10.2210/pdb8VKF/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodopseudomonas palustris HaA2
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-01-09 Released: 2024-05-08 
• Deposition Author(s): Podgorski, M.N., Bell, S.G.
• Funding Organization(s): Australian Research Council (ARC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.212 
• R-Value Work: 0.175 
• R-Value Observed: 0.177 

Starting Model: experimental

Literature

Selective alpha-Hydroxyketone Formation and Subsequent C-C Bond Cleavage by Cytochrome P450 Monooxygenase Enzymes

Lee, J.H.Z., Coleman, T., Mclean, M.A., Podgorski, M.N., Hayball, E.F., Stone, I.S.J., Bruning, J.B., Whelan, F., De Voss, J.J., Sligar, S.G., Bell, S.G.

(2024) ACS Catal 14: 8958-8971

• DOI: https://doi.org/10.1021/acscatal.4c01766

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 45.44 kDa 
• Atom Count: 3,556 
• Modelled Residue Count: 393 
• Deposited Residue Count: 410 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome P450	A	410	Rhodopseudomonas palustris HaA2	Mutation(s): 0  Gene Names: RPB_3613
UniProt
Find proteins for Q2IU02 (Rhodopseudomonas palustris (strain HaA2)) Explore Q2IU02  Go to UniProtKB:  Q2IU02

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
LVK (Subject of Investigation/LOI)	C [auth A]	4-propanoylbenzoic acid C10 H10 O3 MQZBJHMHKZVYHB-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.212 
• R-Value Work: 0.175 
• R-Value Observed: 0.177 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.954	α = 90
b = 51.322	β = 92.57
c = 79.119	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-08 
Deposition Author(s): Podgorski, M.N., Bell, S.G.

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Funding Organization	Location	Grant Number
Australian Research Council (ARC)	Australia	--

Revision History  

• Version 1.0: 2024-05-08
  Type: Initial release
  
• Version 1.1: 2024-07-31
  Changes: Database references