2KHJ

NMR structure of the domain 6 of the E. coli ribosomal protein S1


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 12 
  • Selection Criteria: 12 structures for lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Probing the relationship between Gram-negative and Gram-positive S1 proteins by sequence analysis

Salah, P.Bisaglia, M.Aliprandi, P.Uzan, M.Sizun, C.Bontems, F.

(2009) Nucleic Acids Res. 37: 5578-5588

  • DOI: 10.1093/nar/gkp547
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Escherichia coli ribosomal protein S1 is required for the translation initiation of messenger RNAs, in particular when their Shine-Dalgarno sequence is degenerated. Closely related forms of the protein, composed of the same number of domains (six), a ...

    Escherichia coli ribosomal protein S1 is required for the translation initiation of messenger RNAs, in particular when their Shine-Dalgarno sequence is degenerated. Closely related forms of the protein, composed of the same number of domains (six), are found in all Gram-negative bacteria. More distant proteins, generally formed of fewer domains, have been identified, by sequence similarities, in Gram-positive bacteria and are also termed 'S1 proteins'. However in the absence of functional information, it is generally difficult to ascertain their relationship with Gram-negative S1. In this article, we report the solution structure of the fourth and sixth domains of the E. coli protein S1 and show that it is possible to characterize their beta-barrel by a consensus sequence that allows a precise identification of all domains in Gram-negative and Gram-positive S1 proteins. In addition, we show that it is possible to discriminate between five domain types corresponding to the domains 1, 2, 3, 4-5 and 6 of E. coli S1 on the basis of their sequence. This enabled us to identify the nature of the domains present in Gram-positive proteins and, subsequently, to probe the filiations between all forms of S1.


    Organizational Affiliation

    CNRS, Centre de Recherche CNRS de Gif-sur-Yvette FRC 3115, Institut de Chimie des Substances Naturelles, 91198 Gif-sur-Yvette Cedex, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S1
A
109Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: rpsA (ssyF)
Find proteins for P0AG67 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AG67
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 12 
  • Selection Criteria: 12 structures for lowest energy 
  • Olderado: 2KHJ Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-20
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance