1J08 | pdb_00001j08

Crystal structure of glutaredoxin-like protein from Pyrococcus horikoshii

PDB DOI: https://doi.org/10.2210/pdb1J08/pdb

Classification: ISOMERASE
Organism(s): Pyrococcus horikoshii
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2002-11-11 Released: 2003-05-11
Deposition Author(s): Tanaka, Y., Tanabe, E., Tsumoto, K., Kumagai, I., Yao, M., Tanaka, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.242 (Depositor)
R-Value Work:
0.188 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 1J08

This is version 1.4 of the entry. See complete history.

Literature

Protein disulfide isomerase from hyperthermophile as an additives of refolding of an immunoglobulin-folded protein

Tanaka, Y., Tanabe, E., Tsumoto, K., Kumagai, I., Yao, M., Tanaka, I.

To be published.

Macromolecule Content

Total Structure Weight: 205.4 kDa
Atom Count: 15,514
Modeled Residue Count: 1,800
Deposited Residue Count: 1,808
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
glutaredoxin-like protein	A, B, C, D, E A, B, C, D, E, F, G, H	226	Pyrococcus horikoshii	Mutation(s): 0 Gene Names: PH0178
UniProt
Find proteins for O57917 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O57917 Go to UniProtKB: O57917
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O57917
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.242 (Depositor)
R-Value Work: 0.188 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 144.95	α = 90
b = 257.33	β = 90
c = 48.47	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
CNS	refinement
CCP4	data scaling

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2003-05-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-05-11
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2023-10-25
Changes: Data collection, Database references, Refinement description
Version 1.4: 2024-11-20
Changes: Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.