Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

SsrA-binding protein

Gene

smpB

Organism
Peptoclostridium difficile (strain 630) (Clostridium difficile)
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

BioCyciCDIF272563:GJFE-3397-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:CD630_31570
OrganismiPeptoclostridium difficile (strain 630) (Clostridium difficile)
Taxonomic identifieri272563 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptostreptococcaceaePeptoclostridium
Proteomesi
  • UP000001978 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 – 163163SsrA-binding proteinPRO_0000331032Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272563.CD3157.

Structurei

3D structure databases

ProteinModelPortaliQ184Z6.
SMRiQ184Z6. Positions 15-142.
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.

Q184Z6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEQISSKEGE IYMAGKKILA TNKRARHEYF IEETYECGIE LKGTEVKSIR
60 70 80 90 100
QGKVNLSDGF ASVDNSEVFL KQVHISPYEQ GNIFNVDSLR VRKLLLHKHE
110 120 130 140 150
IRKLIGATTI KGYSLIPLSL YLKNGKVKVE IALAKGKKLY DKRQDMAKKD
160
AQRRIEREMT GKY
Length:163
Mass (Da):18,721
Last modified:July 25, 2006 - v1
Checksum:i4F03DDACD9C5E505
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM180355 Genomic DNA. Translation: CAJ70053.1.
RefSeqiWP_011861858.1. NC_009089.1.
YP_001089673.1. NC_009089.1.

Genome annotation databases

EnsemblBacteriaiCAJ70053; CAJ70053; CD630_31570.
GeneIDi4913865.
KEGGicdf:CD630_31570.
PATRICi19444845. VBICloDif38397_3306.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM180355 Genomic DNA. Translation: CAJ70053.1.
RefSeqiWP_011861858.1. NC_009089.1.
YP_001089673.1. NC_009089.1.

3D structure databases

ProteinModelPortaliQ184Z6.
SMRiQ184Z6. Positions 15-142.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272563.CD3157.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAJ70053; CAJ70053; CD630_31570.
GeneIDi4913865.
KEGGicdf:CD630_31570.
PATRICi19444845. VBICloDif38397_3306.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyciCDIF272563:GJFE-3397-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 630.

Entry informationi

Entry nameiSSRP_PEPD6
AccessioniPrimary (citable) accession number: Q184Z6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: July 25, 2006
Last modified: November 11, 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.