1QOX | pdb_00001qox

Beta-glucosidase from Bacillus circulans sp. alkalophilus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Work: 
    0.255 (Depositor), 0.238 (DCC) 
  • R-Value Observed: 
    0.255 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history

Literature

The Crystal Structure of Beta-Glucosidase from Bacillus Circulans Sp. Alkalophilus: Ability to Form Long Polymeric Assemblies

Hakulinen, N.Paavilainen, S.Korpela, T.Rouvinen, J.

(2000) J Struct Biol 129: 69

  • DOI: https://doi.org/10.1006/jsbi.1999.4206
  • Primary Citation Related Structures: 
    1QOX

  • PubMed Abstract: 

    Family 1 of glycosyl hydrolases is a large and biologically important group of enzymes. A new three-dimensional structure of this family, beta-glucosidase from Bacillus circulans sp. alkalophilus is reported here. This is the first structure of beta-glucosidase from an alkaliphilic organism. The model was determined by the molecular replacement method and refined to a resolution of 2.7 A. The quaternary structure of B. circulans sp. alkalophilus beta-glucosidase is an octamer and subunits of the octamer show a similar (beta/alpha)(8) barrel fold to that previously reported for other family 1 enzymes. The crystal structure suggested that Cys169 in the active site is substituted. The Cys169 is located near the putative acid/base catalyst Glu166 and it may contribute to the high pH optimum of the enzyme. The crystal structure also revealed that the asymmetric unit contains two octamers which have a clear binding interaction with each other. The ability of the octamers to link with each other suggested that beta-glucosidase from Bacillus circulans sp. alkalophilus is able to form long polymeric assemblies, at least in the crystalline state.


  • Organizational Affiliation
    • Department of Chemistry, University of Joensuu, Joensuu, 80101, Finland.

Macromolecule Content 

  • Total Structure Weight: 819.56 kDa 
  • Atom Count: 60,304 
  • Modeled Residue Count: 7,184 
  • Deposited Residue Count: 7,184 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
BETA-GLUCOSIDASE
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
449Niallia circulans subsp. alkalophilusMutation(s): 0 
EC: 3.2.1.21
UniProt
Find proteins for Q03506 (Niallia circulans)
Explore Q03506 
Go to UniProtKB:  Q03506
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03506
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Work:  0.255 (Depositor), 0.238 (DCC) 
  • R-Value Observed: 0.255 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 116.4α = 89.3
b = 122.3β = 74.3
c = 163.2γ = 68
Software Package:
Software NamePurpose
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-02-27
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-07-05
    Changes: Data collection
  • Version 1.4: 2023-12-13
    Changes: Data collection, Database references, Other, Refinement description