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.

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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

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.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Biological Assembly 5  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 5 assigned by authors.

Biological Assembly 6  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 6 assigned by authors.

Biological Assembly 7  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 7 assigned by authors.

Biological Assembly 8  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 8 assigned by authors.

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

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
glutaredoxin-like protein	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

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

Entry History 

Deposition Data

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

Revision History  

• 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