2OKU

The crystal structure of the acyl-CoA dehydrogenase family protein from Porphyromonas gingivalis

• PDB DOI: https://doi.org/10.2210/pdb2OKU/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Porphyromonas gingivalis W83
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2007-01-17 Released: 2007-02-20 
• Deposition Author(s): Zhang, R., Bigelow, L., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.205 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 

Literature

The crystal structure of the acyl-CoA dehydrogenase family protein from Porphyromonas gingivalis

Zhang, R., Bigelow, L., Abdullah, J., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 30.93 kDa 
• Atom Count: 2,300 
• Modelled Residue Count: 238 
• Deposited Residue Count: 262 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyl-CoA dehydrogenase family protein	A, B	131	Porphyromonas gingivalis W83	Mutation(s): 4  Gene Names: PG_0775
UniProt
Find proteins for Q7MW70 (Porphyromonas gingivalis (strain ATCC BAA-308 / W83)) Explore Q7MW70  Go to UniProtKB:  Q7MW70

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.205 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.34	α = 90
b = 90.34	β = 90
c = 102.069	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-02-20 
Deposition Author(s): Zhang, R., Bigelow, L., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-02-20
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-11-20
  Changes: Structure summary