2E8G | pdb_00002e8g

The structure of protein from P. horikoshii at 1.7 angstrom resolution

PDB DOI: https://doi.org/10.2210/pdb2E8G/pdb

Classification: RNA BINDING PROTEIN
Organism(s): Pyrococcus horikoshii OT3
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-01-19 Released: 2008-01-22
Deposition Author(s): Gao, Y.G., Yao, M., Tanaka, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.237 (Depositor), 0.219 (DCC)
R-Value Work:
0.199 (Depositor), 0.220 (DCC)
R-Value Observed:
0.203 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2E8G

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

Literature

Structure of protein PH0536 from Pyrococcus horikoshii at 1.7 A resolution reveals a novel assembly of an oligonucleotide/oligosaccharide-binding fold and an alpha-helical bundle

Gao, Y.-G., Yao, M., Tanaka, I.

(2008) Proteins 71: 503-508

PubMed: 18186487 Search on PubMed
DOI: https://doi.org/10.1002/prot.21895
Primary Citation Related Structures:
2E8G

Organizational Affiliation

Faculty of Advanced Life Sciences, Graduate School of Life Sciences, Hokkaido University, Sapporo, Japan.

Macromolecule Content

Total Structure Weight: 53.91 kDa
Atom Count: 4,155
Modeled Residue Count: 480
Deposited Residue Count: 482
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein PH0536	A, B	241	Pyrococcus horikoshii OT3	Mutation(s): 0 Gene Names: ph0536
UniProt
Find proteins for O58271 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58271 Go to UniProtKB: O58271
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O58271
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.237 (Depositor), 0.219 (DCC)
R-Value Work: 0.199 (Depositor), 0.220 (DCC)
R-Value Observed: 0.203 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.186	α = 90
b = 71.691	β = 96.15
c = 69.193	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-01-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-01-22
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-03-13
Changes: Data collection, Database references

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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.