2.0 A Structure of Protein of Unknown Function from Thermoplasma acidophilum

Experimental Data Snapshot

  • Resolution: 2.00 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.213 

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This is version 1.4 of the entry. See complete history


Crystal structure of the hypothetical protein TA1238 from Thermoplasma acidophilum: a new type of helical super-bundle.

Sanishvili, R.Pennycooke, M.Gu, J.Xu, X.Joachimiak, A.Edwards, A.M.Christendat, D.

(2004) J Struct Funct Genomics 5: 231-240

  • DOI: https://doi.org/10.1007/s10969-005-3789-1
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The crystal structure of the hypothetical protein TA1238 from Thermoplasma acidophilum was solved with multiple-wavelength anomalous diffraction and refined at 2.0 A resolution. The molecule consists of a typical four-helix antiparallel bundle with overhand connection. However, its oligomerization into a trimer leads to a coiled "super-helix" which is novel for such bundles. Its central feature, a six-stranded coiled coil, is also novel for proteins. TA1238 does not have strong sequence homologues in databases, but shows strong structural similarity with some proteins in the Protein Data Bank. The function could not be inferred from the sequence but the structure, with some rearrangement, bears some resemblance to the active site region of cobalamin adenosyltransferase (TA1434). Specifically, TA1238 retains Arg104, which is structurally equivalent to functionally critical Arg119 of TA1434. For such conformational change, the overhand connection of TA1238 might need to be involved in a gating mechanism that might be modulated by ligands and/or by interactions with the physiological partners. This allowed us to hypothesize that TA1238 could be involved in cobalamin biosyntheses.

  • Organizational Affiliation

    Biosciences, Argonne National Laboratory, Structural Biology Center, Midwest Center for Structural Genomics, 9700 South Cass Avenue, Argonne, IL 60439, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
hypothetical protein TA1238152Thermoplasma acidophilumMutation(s): 0 
Gene Names: TA1238
Find proteins for Q9HIT9 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165))
Explore Q9HIT9 
Go to UniProtKB:  Q9HIT9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HIT9
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.00 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.213 
  • Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 101.23α = 90
b = 101.23β = 90
c = 101.23γ = 90
Software Package:
Software NamePurpose
d*TREKdata reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-07-15
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2024-02-14
    Changes: Data collection, Database references, Derived calculations
  • Version 1.4: 2024-04-03
    Changes: Refinement description