4YWE

Crystal Structure of a Putative Aldehyde Dehydrogenase from Burkholderia cenocepacia

• PDB DOI: https://doi.org/10.2210/pdb4YWE/pdb

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


• Deposited: 2015-03-20 Released: 2015-04-08 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.243 
• R-Value Work: 0.198 
• R-Value Observed: 0.200 

Starting Model: experimental

Literature

Crystal Structure of a Putative Aldehyde Dehydrogenase from Burkholderia cenocepacia

Seattle Structural Genomics Center for Infectious Disease (SSGCID), Dranow, D.M., 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: 413.03 kDa 
• Atom Count: 31,507 
• Modelled Residue Count: 3,806 
• Deposited Residue Count: 3,896 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative aldehyde dehydrogenase	A, B, C, D, E, F, G, H	487	Burkholderia cenocepacia J2315	Mutation(s): 0  Gene Names: BCAL2623
UniProt
Find proteins for B4E8B7 (Burkholderia cenocepacia (strain ATCC BAA-245 / DSM 16553 / LMG 16656 / NCTC 13227 / J2315 / CF5610)) Explore B4E8B7  Go to UniProtKB:  B4E8B7

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	CA [auth G], DA [auth G], EA [auth G], FA [auth G], GA [auth G], I [auth A], JA [auth H], KA [auth H], LA [auth H], M [auth B], MA [auth H], N [auth B], P [auth C], Q [auth C], X [auth F], Y [auth F], Z [auth F]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CA	AA [auth F], BA [auth F], HA [auth G], IA [auth G], K [auth A], NA [auth H], O [auth B], S [auth C], T [auth D], U [auth D], W [auth E]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
MG	J [auth A], L [auth A], R [auth C], V [auth E]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.243 
• R-Value Work: 0.198 
• R-Value Observed: 0.200 
• Space Group: P 1
• Diffraction Data: https://doi.org/10.18430/M34YWE

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.32	α = 89.12
b = 93.07	β = 78.55
c = 139.43	γ = 89.85

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
BALBES	phasing
ARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-04-08 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2015-04-08
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description, Source and taxonomy