HMM Summary Page: TIGR00717

AccessionTIGR00717
NamerpsA
Functionribosomal protein S1
Gene SymbolrpsA
Trusted Cutoff577.00
Domain Trusted Cutoff577.00
Noise Cutoff255.60
Domain Noise Cutoff255.60
Isology Typeequivalog
HMM Length516
Mainrole CategoryProtein synthesis
Subrole CategoryRibosomal proteins: synthesis and modification
Gene Ontology TermGO:0000314: organellar small ribosomal subunit cellular_component
GO:0003735: structural constituent of ribosome molecular_function
GO:0006412: translation biological_process
GO:0022627: cytosolic small ribosomal subunit cellular_component
AuthorHaft DH
Entry DateFeb 1 2000 10:52AM
Last ModifiedFeb 14 2011 3:27PM
CommentThis HMM describes ribosomal protein S1, RpsA. This protein is found in most bacterial genomes in a single copy, but is not present in the Mycoplasmas. It is heterogeneous with respect to the number of repeats of the S1 RNA binding domain described by PFAM HMM PF00575: six repeats in E. coli and most other bacteria, four in Bacillus subtilis and some other species. rpsA is an essential gene in E. coli but not in B. subtilis. It is associated with the cytidylate kinase gene cmk in many species, and fused to it in Treponema pallidum. RpsA is proposed (Medline:97323001) to assist in mRNA degradation. This model provides trusted hits to most long form (6 repeat) examples of RpsA. Among homologs with only four repeats are some to which other (perhaps secondary) functions have been assigned.
ReferencesA2 hmmalign AL clustalw DR PFAM; PF00575; S1 RNA binding domain RN [1] RM 97323001
Genome PropertyGenProp0175: ribosome, bacterial, small subunit (HMM)