1PKP

THE STRUCTURE OF RIBOSOMAL PROTEIN S5 REVEALS SITES OF INTERACTION WITH 16S RRNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The structure of ribosomal protein S5 reveals sites of interaction with 16S rRNA.

Ramakrishnan, V.White, S.W.

(1992) Nature 358: 768-771

  • DOI: 10.1038/358768a0
  • Primary Citation of Related Structures:  
    1PKP

  • PubMed Abstract: 
  • Understanding the process whereby the ribosome translates the genetic code into protein molecules will ultimately require high-resolution structural information, and we report here the first crystal structure of a protein from the small ribosomal sub ...

    Understanding the process whereby the ribosome translates the genetic code into protein molecules will ultimately require high-resolution structural information, and we report here the first crystal structure of a protein from the small ribosomal subunit. This protein, S5, has a molecular mass of 17,500 and is highly conserved in all lifeforms. The molecule contains two distinct alpha/beta domains that have structural similarities to several other proteins that are components of ribonucleoprotein complexes. Mutations in S5 result in several phenotypes which suggest that S5 may have a role in translational fidelity and translocation. These include ribosome ambiguity or ram, reversion from streptomycin dependence and resistance to spectinomycin. Also, a cold-sensitive, spectinomycin-resistant mutant of S5 has been identified which is defective in initiation. Here we show that these mutations map to two distinct regions of the molecule which seem to be sites of interaction with ribosomal RNA. A structure/function analysis of the molecule reveals discrepancies with current models of the 30S subunit.


    Related Citations: 
    • Model for the Three-Dimensional Folding of 16S Ribosomal RNA
      Stern, S., Weiser, B., Noller, H.F.
      (1988) J Mol Biol 204: 447
    • Proteins of the Bacillus Stearothermophilus Ribosome: A 5A Structure Analysis of Protein S5
      White, S.W., Appelt, K., Dijk, J., Wilson, K.S.
      (1983) FEBS Lett 163: 73
    • Proteins of the Bacillus Stearothermophilus Ribosome. Crystallization of Proteins L30 and S5
      Appelt, K., White, S.W., Wilson, K.S.
      (1983) J Biol Chem 258: 13328
    • Effect of Different Mutations in Ribosomal Protein S5 of Escherichia Coli on Translational Fidelity
      Piepersberg, W., Bock, A., Wittmann, H.-G.
      (1975) Mol Gen Genet 140: 91
    • Genetic Position and Amino Acid Replacements of Several Mutations in Ribosomal Protein S5 from Escherichia Coli
      Piepersberg, W., Bock, A., Yaguchi, M., Wittmann, H.-G.
      (1975) Mol Gen Genet 143: 43

    Organizational Affiliation

    Biology Department, Brookhaven National Laboratory, Upton, New York 11973.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RIBOSOMAL PROTEIN S5A150Geobacillus stearothermophilusMutation(s): 0 
Gene Names: BACILLUS STEAROTHERMOPHILUSrpsE
Find proteins for P02357 (Geobacillus stearothermophilus)
Explore P02357 
Go to UniProtKB:  P02357
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.3α = 90
b = 59.3β = 90
c = 109.8γ = 120
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-11-29
    Changes: Derived calculations, Other