3TA9 | pdb_00003ta9

beta-Glucosidase A from the halothermophile H. orenii

• PDB DOI: https://doi.org/10.2210/pdb3TA9/pdb

• Classification: HYDROLASE
• Organism(s): Halothermothrix orenii H 168
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-08-03 Released: 2012-02-22 
• Deposition Author(s): Hofmann, A., Wang, C.K., Kori, L.D., Patel, B.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 
  0.266 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.188 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Starting Model: experimental

Literature

Expression, purification and preliminary crystallographic analysis of the recombinant (beta)-glucosidase (BglA) from the halothermophile Halothermothrix orenii

Kori, L.D., Hofmann, A., Patel, B.K.

(2011) Acta Crystallogr Sect F Struct Biol Cryst Commun 67: 111-113

• PubMed: 21206038 
• DOI: https://doi.org/10.1107/S1744309110046981
• Primary Citation Related Structures: 
  3TA9


• PubMed Abstract: 
  

  The β-glucosidase A gene (bglA) has been cloned from the halothermophilic bacterium Halothermothrix orenii and the recombinant enzyme (BglA; EC 3.2.1.21) was bacterially expressed, purified using metal ion-affinity chromatography and subsequently crystallized. Orthorhombic crystals were obtained that diffracted to a resolution limit of 3.5 Å. The crystal structure with two molecules in the asymmetric unit was solved by molecular replacement using a library of known glucosidase structures. Attempts to collect higher resolution diffraction data from crystals grown under different conditions and structure refinement are currently in progress.

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Organizational Affiliation: 
• Microbial Gene Research and Resources Facility, School of Biomolecular and Physical Sciences, Griffith University, Brisbane QLD 4111, Australia.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 106.43 kDa 
• Atom Count: 7,315 
• Modeled Residue Count: 889 
• Deposited Residue Count: 916 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycoside hydrolase family 1	A, B	458	Halothermothrix orenii H 168	Mutation(s): 0  Gene Names: Hore_15280 EC: 3.2.1.21
UniProt
Find proteins for B8CYA8 (Halothermothrix orenii (strain H 168 / OCM 544 / DSM 9562)) Explore B8CYA8  Go to UniProtKB:  B8CYA8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NI	C [auth A], D [auth B]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free:  0.266 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.188 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.504	α = 90
b = 99.577	β = 90
c = 109.427	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
PHENIX	model building
PHASER	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-22 
Deposition Author(s): Hofmann, A., Wang, C.K., Kori, L.D., Patel, B.K.

Revision History  

• Version 1.0: 2012-02-22
  Type: Initial release
  
• Version 1.1: 2017-11-08
  Changes: Refinement description
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description