Protein Info for Pf6N2E2_3378 in Pseudomonas fluorescens FW300-N2E2

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

1 50 100 160 PF01668: SmpB" amino acids 12 to 154 (143 residues), 196 bits, see alignment E=1.5e-62 TIGR00086: SsrA-binding protein" amino acids 12 to 153 (142 residues), 172.9 bits, see alignment E=2.1e-55

Best Hits

Swiss-Prot: 92% identical to SSRP_PSEF5: SsrA-binding protein (smpB) from Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)

KEGG orthology group: K03664, SsrA-binding protein (inferred from 99% identity to pba:PSEBR_a756)

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 A0A0D0PHS9 at UniProt or InterPro

Protein Sequence (160 amino acids)

>Pf6N2E2_3378 tmRNA-binding protein SmpB (Pseudomonas fluorescens FW300-N2E2)
MAKQKKHPTGTIAQNKKARHDYFIEQRFEAGMVLAGWEVKSLRAGKAQLVDSYVLLKDGE
AWLLGSHITPLTTASTHVIADPVRSRKLLLNKRELEKLFASVQQKGYTCVCTSLYWSKHL
IKCEIALGKGKKEYDKRDTERERDAGRELQRAVRNKGKED