PROSITE documentation PDOC00549

Ribosomal protein S4 signature

Description

Ribosomal protein S4 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S4 is known to bind directly to 16S ribosomal RNA. Mutations in S4 have been shown to increase translational error frequencies. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [1,2], groups:

  • Eubacterial S4.
  • Algal and plant chloroplast S4.
  • Cyanelle S4.
  • Archaebacterial S4.
  • Mammalian S9.
  • Yeast YS11 (SUP46).
  • Marchantia polymorpha mitochondrial S4.
  • Dictyostelium discoideum rp1024.
  • Yeast protein NAM9 [3]. NAM9 has been characterized as a suppressor for ochre mutations in mitochondrial DNA. It could be a ribosomal protein that acts as a suppressor by decreasing translation accuracy.

S4 is a protein of 171 to 205 amino-acid residues (except for NAM9 which is much larger). The signature pattern for this protein is based on a conserved region located in the central section of these proteins.

Last update:

April 2006 / Pattern revised.

Technical section

PROSITE method (with tools and information) covered by this documentation:

RIBOSOMAL_S4, PS00632; Ribosomal protein S4 signature  (PATTERN)
Consensus pattern: [LIVM]-[DERA]-x-R-[LI]-x(3)-[LIVMC]-[VMFYHQL]-[KRTS]-x(3)-[STAGCVF]-x-[ST]-x(3)-[SAI]-[KRQ]-x-[LIVMF](2)
Sequences known to belong to this class detected by the pattern: ALL
Other sequence(s) detected in Swiss-Prot: NONE
• Retrieve an alignment of Swiss-Prot true positive hits:
  Clustal format, color, condensed view  / Clustal format, color  / Clustal format, plain text  / Fasta format
• Retrieve the sequence logo from the alignment
• Taxonomic tree view of all Swiss-Prot/TrEMBL entries matching PS00632
• Retrieve a list of all Swiss-Prot/TrEMBL entries matching PS00632
• Scan Swiss-Prot/TrEMBL entries against PS00632
• view ligand binding statistics
Matching PDB structures: 1C05 1C06 1EG0 1FJG ... [ALL]

References

1 Authors Mizuta K., Hashimoto T., Suzuki K.I., Otaka E.
Title Yeast ribosomal proteins: XII. YS11 of Saccharomyces cerevisiae is a homologue to E. coli S4 according to the gene analysis.
Source Nucleic Acids Res. 19:2603-2608(1991).
PubMed ID 2041737
2 Authors Otaka E., Hashimoto T., Mizuta K.
Source Protein Seq. Data Anal. 5:285-300(1993).
3 Authors Boguta M., Dmochowska A., Borsuk P., Wrobel K., Gargouri A., Lazowska J., Slonimski P.P., Szczesniak B., Kruszewska A.
Title NAM9 nuclear suppressor of mitochondrial ochre mutations in Saccharomyces cerevisiae codes for a protein homologous to S4 ribosomal proteins from chloroplasts, bacteria, and eucaryotes.
Source Mol. Cell. Biol. 12:402-412(1992).
PubMed ID 1729612

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