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Protein

SsrA-binding protein

Gene

smpB

Organism
Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches to translate the ORF on the tmRNA; the nascent peptide is terminated with the 'tag peptide' encoded by the tmRNA and targeted for degradation. The ribosome is freed to recommence translation, which seems to be the essential function of trans-translation.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciRRUB269796:GCN1-1896-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
SsrA-binding proteinUniRule annotation
Alternative name(s):
Small protein BUniRule annotation
Gene namesi
Name:smpBUniRule annotation
Ordered Locus Names:Rru_A1864
OrganismiRhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
Taxonomic identifieri269796 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesRhodospirillaceaeRhodospirillum
Proteomesi
  • UP000001929 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

  • Note: The tmRNA-SmpB complex associates with stalled 70S ribosomes.UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 160160SsrA-binding proteinPRO_0000331087Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi269796.Rru_A1864.

Structurei

3D structure databases

ProteinModelPortaliQ2RT81.
SMRiQ2RT81. Positions 13-134.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the SmpB family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108UH4. Bacteria.
COG0691. LUCA.
HOGENOMiHOG000009628.
KOiK03664.
OMAiFLLNAHI.
OrthoDBiEOG6HXJ9P.

Family and domain databases

Gene3Di2.40.280.10. 1 hit.
HAMAPiMF_00023. SmpB.
InterProiIPR023620. SmpB.
IPR000037. SsrA-bd_prot.
IPR020081. SsrA-bd_prot_CS.
[Graphical view]
PfamiPF01668. SmpB. 1 hit.
[Graphical view]
ProDomiPD004488. SmpB. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF74982. SSF74982. 1 hit.
TIGRFAMsiTIGR00086. smpB. 1 hit.
PROSITEiPS01317. SSRP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q2RT81-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARAGNSLIS HGRVAENRRA RHDYSIEETI EAGLILVGTE VKSLRTGRAN
60 70 80 90 100
IADSYAGPKS GELYLYNAYI PDWTQAVKAF AHEPRQPRKL LVHRREARRL
110 120 130 140 150
ISAINKDGMT LVPLYLYFND RGFAKVQLGL AKGRKAHDKR QAIKEREWNR
160
DKARVLRDKG
Length:160
Mass (Da):18,252
Last modified:January 24, 2006 - v1
Checksum:i524577401F4DE0DA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000230 Genomic DNA. Translation: ABC22664.1.
RefSeqiWP_011389617.1. NC_007643.1.
YP_426951.1. NC_007643.1.

Genome annotation databases

EnsemblBacteriaiABC22664; ABC22664; Rru_A1864.
GeneIDi3835288.
KEGGirru:Rru_A1864.
PATRICi23327390. VBIRhoRub82919_1942.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000230 Genomic DNA. Translation: ABC22664.1.
RefSeqiWP_011389617.1. NC_007643.1.
YP_426951.1. NC_007643.1.

3D structure databases

ProteinModelPortaliQ2RT81.
SMRiQ2RT81. Positions 13-134.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi269796.Rru_A1864.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABC22664; ABC22664; Rru_A1864.
GeneIDi3835288.
KEGGirru:Rru_A1864.
PATRICi23327390. VBIRhoRub82919_1942.

Phylogenomic databases

eggNOGiENOG4108UH4. Bacteria.
COG0691. LUCA.
HOGENOMiHOG000009628.
KOiK03664.
OMAiFLLNAHI.
OrthoDBiEOG6HXJ9P.

Enzyme and pathway databases

BioCyciRRUB269796:GCN1-1896-MONOMER.

Family and domain databases

Gene3Di2.40.280.10. 1 hit.
HAMAPiMF_00023. SmpB.
InterProiIPR023620. SmpB.
IPR000037. SsrA-bd_prot.
IPR020081. SsrA-bd_prot_CS.
[Graphical view]
PfamiPF01668. SmpB. 1 hit.
[Graphical view]
ProDomiPD004488. SmpB. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF74982. SSF74982. 1 hit.
TIGRFAMsiTIGR00086. smpB. 1 hit.
PROSITEiPS01317. SSRP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of the chromosome of Rhodospirillum rubrum ATCC 11170."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Munk A.C., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Schmutz J., Larimer F., Land M.
    , Kyrpides N., Mavrommatis K., Richardson P., Zhang Y., Roberts G., Reslewic S., Zhou S., Schwartz D.C.
    Submitted (DEC-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1.

Entry informationi

Entry nameiSSRP_RHORT
AccessioniPrimary (citable) accession number: Q2RT81
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 24, 2006
Last modified: December 9, 2015
This is version 67 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.