4TRR

Crystal structure of a putative Putative D-beta-hydroxybutyrate dehydrogenase from Burkholderia cenocepacia J2315

• PDB DOI: https://doi.org/10.2210/pdb4TRR/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Burkholderia cenocepacia J2315
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-06-17 Released: 2014-08-06 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.222 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 

Starting Model: experimental

Literature

Crystal structure of a putative Putative D-beta-hydroxybutyrate dehydrogenase from Burkholderia cenocepacia J2315

Seattle Structural Genomics Center for Infectious Disease (SSGCID), Abendroth, J., Lukacs, C., Lorimer, D., Edwards, T.E.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 228.38 kDa 
• Atom Count: 15,759 
• Modelled Residue Count: 2,006 
• Deposited Residue Count: 2,152 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative D-beta-hydroxybutyrate dehydrogenase	A, B, C, D, E, F, G, H	269	Burkholderia cenocepacia J2315	Mutation(s): 0  Gene Names: BCAM0022
UniProt
Find proteins for B4EG08 (Burkholderia cenocepacia (strain ATCC BAA-245 / DSM 16553 / LMG 16656 / NCTC 13227 / J2315 / CF5610)) Explore B4EG08  Go to UniProtKB:  B4EG08

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	I [auth A], K [auth B], L [auth C], N [auth D], P [auth E], R [auth H]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	J [auth A], M [auth D], O [auth D], Q [auth F]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.222 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m34trr

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.22	α = 90
b = 91.95	β = 92.94
c = 116.56	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
XDS	data reduction
XSCALE	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-08-06 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2014-08-06
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Database references, Derived calculations, Other, Refinement description, Source and taxonomy
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description