Protein Info for Xcc-8004.3437.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: tmRNA-binding protein SmpB

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

Best Hits

Swiss-Prot: 100% identical to SSRP_XANC8: SsrA-binding protein (smpB) from Xanthomonas campestris pv. campestris (strain 8004)

KEGG orthology group: K03664, SsrA-binding protein (inferred from 100% identity to xca:xccb100_2807)

Predicted SEED Role

"tmRNA-binding protein SmpB" in subsystem Heat shock dnaK gene cluster extended or Staphylococcal pathogenicity islands SaPI or Trans-translation by stalled ribosomes

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q4UT03 at UniProt or InterPro

Protein Sequence (167 amino acids)

>Xcc-8004.3437.1 tmRNA-binding protein SmpB (Xanthomonas campestris pv. campestris strain 8004)
MSKKPAKDKAKSATATKTIALNKRARHEYHLEERYEAGLALQGWEVKAIRAGRANIVDGY
AYVRSGEIYLIGAQITPLIQASTHVIPVERRDRKLLLHRAEIDKVLTRVEREGYTLVPTA
LYWSSNKVKLEIALAKGKQSHDKRDAAKERDWQRDKQRVMRRHNRDA