Protein Info for Shew_3309 in Shewanella loihica PV-4

Annotation: OstA family protein (RefSeq)

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 50 100 150 181 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details TIGR03002: lipopolysaccharide transport periplasmic protein LptA" amino acids 22 to 160 (139 residues), 139.3 bits, see alignment E=3.9e-45 PF03968: LptD_N" amino acids 31 to 141 (111 residues), 100 bits, see alignment E=4.9e-33

Best Hits

KEGG orthology group: K09774, lipopolysaccharide export system protein LptA (inferred from 100% identity to slo:Shew_3309)

Predicted SEED Role

"LptA, protein essential for LPS transport across the periplasm" in subsystem KDO2-Lipid A biosynthesis

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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 A3QI77 at UniProt or InterPro

Protein Sequence (181 amino acids)

>Shew_3309 OstA family protein (RefSeq) (Shewanella loihica PV-4)
MKLNSLILAGLLPLVSVGAYAKVNDLLQEVKISAASQEADIKNNQIIFHGPVEVTQGSIK
ILASELRAFSKEKNSGKILIATGNPATYSQVMEDGRPASASAKEIRYELSSRTLTLIGDA
TLEQEGSQVTGSQIRYNIEQQQLIAESTGKDRVITIIQPENYQEQIQPEQKPEKKPEQEK
Q