2ECE | pdb_00002ece

X-ray structure of hypothetical selenium-binding protein from Sulfolobus tokodaii, ST0059

PDB DOI: https://doi.org/10.2210/pdb2ECE/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Sulfurisphaera tokodaii
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-02-13 Released: 2008-01-01
Deposition Author(s): Yamada, M., Yoshida, H., Kuramitsu, S., Kamitori, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.207 (Depositor), 0.210 (DCC)
R-Value Work:
0.193 (Depositor), 0.190 (DCC)
R-Value Observed:
0.193 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

X-ray structure of hypothetical selenium-binding protein from Sulfolobus tokodaii, ST0059

Yamada, M., Yoshida, H., Kuramitsu, S., Kamitori, S.

To be published.

Macromolecule Content

Total Structure Weight: 52.6 kDa
Atom Count: 3,871
Modeled Residue Count: 455
Deposited Residue Count: 462
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
462aa long hypothetical selenium-binding protein	A	462	Sulfurisphaera tokodaii	Mutation(s): 0
UniProt
Find proteins for Q976Y0 (Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)) Explore Q976Y0 Go to UniProtKB: Q976Y0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q976Y0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.207 (Depositor), 0.210 (DCC)
R-Value Work: 0.193 (Depositor), 0.190 (DCC)
R-Value Observed: 0.193 (Depositor)

Space Group: I 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.196	α = 90
b = 142.196	β = 90
c = 142.196	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MLPHARE	phasing
CNS	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2008-01-01

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-01-01
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-10-30
Changes: Data collection, Database references, Structure summary

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.