2Y2W

Elucidation of the substrate specificity and protein structure of AbfB, a family 51 alpha-L-arabinofuranosidase from Bifidobacterium longum.

• PDB DOI: https://doi.org/10.2210/pdb2Y2W/pdb

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


• Deposited: 2010-12-16 Released: 2011-12-28 
• Deposition Author(s): Lagaert, S., Schoepe, J., Delcour, J.A., Lavigne, R., Strelkov, S.V., Courtin, C.M., Mikkelsen, N.E., Sandgren, M., Volckaert, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.270 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 

Starting Model: experimental

Literature

Elucidation of the Substrate Specificity and Protein Structure of Abfb, a Family 51 Alpha-L- Arabinofuranosidase from Bifidobacterium Longum.

Lagaert, S., Schoepe, J., Delcour, J.A., Lavigne, R., Strelkov, S.V., Courtin, C.M., Mikkelsen, N.E., Sandgren, M., Volckaert, G.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 375.73 kDa 
• Atom Count: 24,278 
• Modelled Residue Count: 3,064 
• Deposited Residue Count: 3,444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ARABINOFURANOSIDASE	A, B, C, D, E, F	574	Bifidobacterium longum	Mutation(s): 0  EC: 3.2.1.55
UniProt
Find proteins for Q8G554 (Bifidobacterium longum (strain NCC 2705)) Explore Q8G554  Go to UniProtKB:  Q8G554

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.270 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 108.469	α = 90
b = 165.811	β = 90
c = 184.297	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-12-28 
Deposition Author(s): Lagaert, S., Schoepe, J., Delcour, J.A., Lavigne, R., Strelkov, S.V., Courtin, C.M., Mikkelsen, N.E., Sandgren, M., Volckaert, G.

Revision History  

• Version 1.0: 2011-12-28
  Type: Initial release
  
• Version 1.1: 2019-05-08
  Changes: Data collection, Experimental preparation, Other
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Other, Refinement description