2YVS | pdb_00002yvs

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.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.249 (Depositor), 0.247 (DCC)
R-Value Work:
0.208 (Depositor), 0.208 (DCC)

Starting Model: experimental
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This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of glycolate oxidase subunit GlcE from Thermus thermophilus HB8

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

To be published.

Macromolecule Content

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

Macromolecules

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5SM78
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.249 (Depositor), 0.247 (DCC)
R-Value Work: 0.208 (Depositor), 0.208 (DCC)

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

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Entry History

Deposition Data

Released Date: 2008-04-15

Deposition Author(s):

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.