5KDY

The crystal structure of the D251N mutant of CYP199A4 in complex with 4-methoxybenzoate

• PDB DOI: https://doi.org/10.2210/pdb5KDY/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodopseudomonas palustris HaA2
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2016-06-08 Released: 2018-02-07 
• Deposition Author(s): Coleman, T., Bruning, J.B., Bell, S.G.
• Funding Organization(s): Australian Research Council (ARC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.248 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 

Starting Model: experimental

Literature

The crystal structure of the D251N mutant of CYP199A4 in complex with 4-methoxybenzoate

Coleman, T., Bruning, J.B., Bell, S.G.

To be published.

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: 43.7 kDa 
• Atom Count: 3,968 
• Modelled Residue Count: 393 
• Deposited Residue Count: 393 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome P450	A	393	Rhodopseudomonas palustris HaA2	Mutation(s): 1  Gene Names: RPB_3613
UniProt
Find proteins for Q2IU02 (Rhodopseudomonas palustris (strain HaA2)) Explore Q2IU02  Go to UniProtKB:  Q2IU02

Small Molecules

Ligands 3 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
ANN	C [auth A]	4-METHOXYBENZOIC ACID C8 H8 O3 ZEYHEAKUIGZSGI-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.248 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.704	α = 90
b = 51.388	β = 93.13
c = 78.274	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-02-07 
Deposition Author(s): Coleman, T., Bruning, J.B., Bell, S.G.

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Funding Organization	Location	Grant Number
Australian Research Council (ARC)	Australia	DP140103229

Revision History  

• Version 1.0: 2018-02-07
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description