1J1H

Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 11 
  • Selection Criteria: on the basis of agreement with the experimental data and van der Waals energy 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus

Someya, T.Nameki, N.Hosoi, H.Suzuki, S.Hatanaka, H.Fujii, M.Terada, T.Shirouzu, M.Inoue, Y.Shibata, T.Kuramitsu, S.Yokoyama, S.Kawai, G.

(2003) FEBS Lett 535: 94-100

  • DOI: 10.1016/s0014-5793(02)03880-2
  • Primary Citation of Related Structures:  
    1J1H

  • PubMed Abstract: 
  • Small protein B (SmpB) is required for trans-translation, binding specifically to tmRNA. We show here the solution structure of SmpB from an extremely thermophilic bacterium, Thermus thermophilus HB8, determined by heteronuclear nuclear magnetic resonance methods ...

    Small protein B (SmpB) is required for trans-translation, binding specifically to tmRNA. We show here the solution structure of SmpB from an extremely thermophilic bacterium, Thermus thermophilus HB8, determined by heteronuclear nuclear magnetic resonance methods. The core of the protein consists of an antiparallel beta-barrel twisted up from eight beta-strands, each end of which is capped with the second or third helix, and the first helix is located beside the barrel. Its C-terminal sequence (20 residues), which is rich in basic residues, shows a poorly structured form, as often seen in isolated ribosomal proteins. The results are discussed in relation to the oligonucleotide binding fold.


    Organizational Affiliation

    Department of Industrial Chemistry, Faculty of Engineering, Chiba Institute of Technology, Chiba 275-0016, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Small Protein BA144Thermus thermophilusMutation(s): 0 
UniProt
Find proteins for Q8RR57 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
Explore Q8RR57 
Go to UniProtKB:  Q8RR57
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8RR57
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 11 
  • Selection Criteria: on the basis of agreement with the experimental data and van der Waals energy 
  • OLDERADO: 1J1H Olderado

Structure Validation

View Full Validation Report




Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2003-02-11
    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: 2022-02-23
    Changes: Database references, Derived calculations