Crystal structure of Thioesterase complexed with coenzyme A and Zn from Thermus thermophilus HB8

Experimental Data Snapshot

  • Resolution: 1.90 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.208 

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Structure of the putative thioesterase protein TTHA1846 from Thermus thermophilus HB8 complexed with coenzyme A and a zinc ion.

Hosaka, T.Murayama, K.Kato-Murayama, M.Urushibata, A.Akasaka, R.Terada, T.Shirouzu, M.Kuramitsu, S.Yokoyama, S.

(2009) Acta Crystallogr D Biol Crystallogr 65: 767-776

  • DOI: https://doi.org/10.1107/S0907444909015601
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    TTHA1846 is a conserved hypothetical protein from Thermus thermophilus HB8 with a molecular mass of 15.1 kDa that belongs to the thioesterase superfamily (Pfam 03061). Here, the 1.9 A resolution crystal structure of TTHA1846 from T. thermophilus is reported. The crystal structure is a dimer of dimers. Each subunit adopts the so-called hot-dog fold composed of five antiparallel beta-strands flanked on one side by a rather long alpha-helix and shares structural similarity to a number of thioesterases. Unexpectedly, TTHA1846 binds one metal ion and one ligand per subunit. The ligand density was modelled as coenzyme A (CoA). Its structure was confirmed by MALDI-TOF mass spectrometry and electron-density mapping. X-ray absorption fine-structure (XAFS) measurement of the crystal unambiguously characterized the metal ion as zinc. The zinc ion is tetrahedrally coordinated by the side chains of Asp18, His22 and Glu50 and the CoA thiol group. This is the first structural report of the interaction of CoA with a zinc ion. From structural and database analyses, it was speculated that the zinc ion may play an inhibitory role in the enzymatic activity.

  • Organizational Affiliation

    Protein Research Group, RIKEN Systems and Structural Biology Center, Tsurumi-ku, Yokohama 230-0045, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative thioesterase
A, B, C, D
133Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1846
EC: 3.1.2
Find proteins for Q5SH84 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
Explore Q5SH84 
Go to UniProtKB:  Q5SH84
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5SH84
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.90 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.208 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.53α = 90
b = 55.817β = 102.42
c = 110.147γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2006-01-06
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance