2YVS

Crystal structure of glycolate oxidase subunit GlcE from Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb2YVS/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-04-15 Released: 2008-04-15 
• Deposition Author(s): Yoneda, K., Sakuraba, H., Kuramitsu, S., Ohshima, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.249 
• R-Value Work: 0.208 

Starting Model: experimental

Literature

Crystal structure of glycolate oxidase subunit GlcE from Thermus thermophilus HB8

Yoneda, K., Sakuraba, H., Kuramitsu, S., Ohshima, T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 48.41 kDa 
• Atom Count: 3,733 
• Modelled Residue Count: 438 
• Deposited Residue Count: 438 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycolate oxidase subunit GlcE	A, B	219	Thermus thermophilus HB8	Mutation(s): 0  EC: 1.1.3.15
UniProt
Find proteins for Q5SM78 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SM78  Go to UniProtKB:  Q5SM78

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.249 
• R-Value Work: 0.208 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.88	α = 90
b = 71.69	β = 90
c = 89.58	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
MOLREP	phasing
CNS	refinement
CrystalClear	data reduction
CrystalClear	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-15 
Deposition Author(s): Yoneda, K., Sakuraba, H., Kuramitsu, S., Ohshima, T.

Revision History  

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references
• Version 1.3: 2024-04-03
  Changes: Refinement description