1IUK

The structure of native ID.343 from Thermus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb1IUK/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Thermus thermophilus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-03-05 Released: 2003-07-15 
• Deposition Author(s): Wada, T., Shirouzu, M., Park, S.-Y., Tame, J.R., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.284 
• R-Value Work: 0.220 
• R-Value Observed: 0.234 

Starting Model: experimental

Literature

Structure of a conserved CoA-binding protein synthesized by a cell-free system.

Wada, T., Shirouzu, M., Terada, T., Ishizuka, Y., Matsuda, T., Kigawa, T., Kuramitsu, S., Park, S.Y., Tame, J.R., Yokoyama, S.

(2003) Acta Crystallogr D Biol Crystallogr 59: 1213-1218

• PubMed: 12832765 
• DOI: https://doi.org/10.1107/s0907444903010515
• Primary Citation of Related Structures:  
  1IUK, 1IUL


• PubMed Abstract: 
  

  TT1466 is a hypothetical protein from the extremely thermophilic bacterium Thermus thermophilus HB8 and is highly conserved in bacteria and archaea. The selenomethionyl protein was synthesized by a cell-free system and the crystal structure was determined at 2.0 A by MAD phasing. A native crystal was used for structure refinement to 1.7 A. The structure is highly homologous to that of the CoA-binding domain of the succinyl-CoA synthetase from Escherichia coli, despite the protein having only 14% sequence identity to this domain. An isothermal titration calorimetry experiment was performed to investigate whether TT1466 binds CoA and revealed high-affinity CoA binding of TT1466.

---

Organizational Affiliation: 

RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15.89 kDa 
• Atom Count: 1,174 
• Modelled Residue Count: 136 
• Deposited Residue Count: 140 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein TT1466	A	140	Thermus thermophilus	Mutation(s): 0
UniProt
Find proteins for Q8GHJ5 (Thermus thermophilus) Explore Q8GHJ5  Go to UniProtKB:  Q8GHJ5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.284 
• R-Value Work: 0.220 
• R-Value Observed: 0.234 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 27.908	α = 90
b = 64.581	β = 90
c = 67.858	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
MOLREP	phasing
X-PLOR	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-07-15 
Deposition Author(s): Wada, T., Shirouzu, M., Park, S.-Y., Tame, J.R., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2003-07-15
  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: 2014-04-16
  Changes: Other
• Version 1.4: 2023-10-25
  Changes: Data collection, Database references, Refinement description