Protein Info for Psyr_4144 in Pseudomonas syringae pv. syringae B728a

Annotation: Protein of unknown function DUF1239

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 50 100 150 190 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details TIGR04409: LPS export ABC transporter periplasmic protein LptC" amino acids 10 to 187 (178 residues), 168 bits, see alignment E=7.8e-54 PF06835: LptC" amino acids 14 to 188 (175 residues), 190.8 bits, see alignment E=7.7e-61

Best Hits

KEGG orthology group: K11719, lipopolysaccharide export system protein LptC (inferred from 100% identity to psb:Psyr_4144)

Predicted SEED Role

"Uncharacterized protein YrbK clustered with lipopolysaccharide transporters"

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 Q4ZNU8 at UniProt or InterPro

Protein Sequence (190 amino acids)

>Psyr_4144 Protein of unknown function DUF1239 (Pseudomonas syringae pv. syringae B728a)
MFTKKIRKFLLLGVLALLLAAVGYWNISPESFMDQPDASLDDTAIDYYAINTRSVQYLPD
GTLQYDMTSDKVEHVKATDVSLLTTPNLNMYRGGAFPWHVQSKRGEVSSDGDQVELMDSV
RVERTDEKQRTTIITSSRMTVFPQKEYAQTDQDVRIDGAGGVTTAKGMKAYLKDSRMDLL
SNVRGQYEAR