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Protein

SsrA-binding protein

Gene

smpB

Organism
Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
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

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:BUsg_245
OrganismiBuchnera aphidicola subsp. Schizaphis graminum (strain Sg)
Taxonomic identifieri198804 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesErwiniaceaeBuchnera
Proteomesi
  • UP000000416 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)DescriptionActionsGraphical viewLength
ChainiPRO_00001029211 – 163SsrA-binding proteinAdd BLAST163

Interactioni

Protein-protein interaction databases

STRINGi198804.BUsg245.

Structurei

3D structure databases

ProteinModelPortaliQ8K9R5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the SmpB family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108UH4. Bacteria.
COG0691. LUCA.
KOiK03664.
OMAiQNKKASH.
OrthoDBiPOG091H022D.

Family and domain databases

CDDicd09294. SmpB. 1 hit.
Gene3Di2.40.280.10. 1 hit.
HAMAPiMF_00023. SmpB. 1 hit.
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.

Q8K9R5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSYKKKRCLK SSIICKNKKA YYNYFIEEVF QSGLVLMGWE VKSIRLGQVN
60 70 80 90 100
IIESYINNDN LNEMYLYNSI VQPLHTSSNY VSCDSSRKRK LLLHKNEIQY
110 120 130 140 150
LCNKKNKIGS TLVALSLFWE KSWCKLNFGL AKGKTKIDKR ASEKQNEWKK
160
EKLKILKKVK FQN
Length:163
Mass (Da):19,246
Last modified:October 1, 2002 - v1
Checksum:i637702F33DF7BA08
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67804.1.
RefSeqiWP_011053771.1. NC_004061.1.

Genome annotation databases

EnsemblBacteriaiAAM67804; AAM67804; BUsg_245.
KEGGibas:BUsg_245.
PATRICi21247293. VBIBucAph100086_0256.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67804.1.
RefSeqiWP_011053771.1. NC_004061.1.

3D structure databases

ProteinModelPortaliQ8K9R5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198804.BUsg245.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM67804; AAM67804; BUsg_245.
KEGGibas:BUsg_245.
PATRICi21247293. VBIBucAph100086_0256.

Phylogenomic databases

eggNOGiENOG4108UH4. Bacteria.
COG0691. LUCA.
KOiK03664.
OMAiQNKKASH.
OrthoDBiPOG091H022D.

Family and domain databases

CDDicd09294. SmpB. 1 hit.
Gene3Di2.40.280.10. 1 hit.
HAMAPiMF_00023. SmpB. 1 hit.
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...

Entry informationi

Entry nameiSSRP_BUCAP
AccessioniPrimary (citable) accession number: Q8K9R5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 8, 2002
Last sequence update: October 1, 2002
Last modified: November 2, 2016
This is version 85 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

Documents

  1. Buchnera aphidicola (subsp. Schizaphis graminum)
    Buchnera aphidicola (subsp. Schizaphis graminum): entries and gene names
  2. 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.