3S6O | pdb_00003s6o

Crystal structure of a Polysaccharide deacetylase family protein from Burkholderia pseudomallei

• PDB DOI: https://doi.org/10.2210/pdb3S6O/pdb

• Classification: HYDROLASE
• Organism(s): Burkholderia pseudomallei
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-05-25 Released: 2011-06-15 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.259 (Depositor), 0.269 (DCC) 
• R-Value Work: 
  0.218 (Depositor), 0.229 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a Polysaccharide deacetylase family protein from Burkholderia pseudomallei

Seattle Structural Genomics Center for Infectious Disease (SSGCID), Gardberg, A., Edwards, T., Sankaran, B., Staker, B., Stewart, L.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 148.23 kDa 
• Atom Count: 10,801 
• Modeled Residue Count: 1,221 
• Deposited Residue Count: 1,284 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polysaccharide deacetylase family protein	A, B, C, D	321	Burkholderia pseudomallei	Mutation(s): 0  Gene Names: BURPS1710b_2533 EC: 3.5.1
UniProt
Find proteins for Q63T51 (Burkholderia pseudomallei (strain K96243)) Explore Q63T51  Go to UniProtKB:  Q63T51

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth B], F [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.259 (Depositor), 0.269 (DCC) 
• R-Value Work:  0.218 (Depositor), 0.229 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M33S6O

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.41	α = 90
b = 165.66	β = 90
c = 165.84	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-15 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2011-06-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description