Protein Info for GFF1294 in Variovorax sp. SCN45

Annotation: Efflux transport system, outer membrane factor (OMF) lipoprotein

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 50 100 150 200 250 300 350 400 469 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details TIGR01845: efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family" amino acids 15 to 464 (450 residues), 279.8 bits, see alignment E=2.1e-87 PF02321: OEP" amino acids 72 to 254 (183 residues), 55.9 bits, see alignment E=2.6e-19 amino acids 288 to 462 (175 residues), 60.2 bits, see alignment E=1.2e-20

Best Hits

KEGG orthology group: None (inferred from 82% identity to vpe:Varpa_2702)

Predicted SEED Role

"RND efflux system, outer membrane lipoprotein CmeC" in subsystem Multidrug Resistance Efflux Pumps or Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)

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

Find the best match in UniProt

Protein Sequence (469 amino acids)

>GFF1294 Efflux transport system, outer membrane factor (OMF) lipoprotein (Variovorax sp. SCN45)
VSSARFLHRGVAAAAVALTLGGCALFQPEQREQRPLNVPSAWQQQQPSPVAVANAAAMPS
EQWWAAFQDPQLDTLIDNALRTNNDLAVAGIRVQRAQLQAGLANTNLTPGVVGQLNTSRG
YDLKRGGVAGSASSSLVTLSYELDLWGRLSALRSAADWELKATVSDRQAAALALVGTTAG
LYWQTGYLNQRIALSEAGIEDGRRILALVRTKYAAGAVSGLDVAQAGQNLATQEAAHTQL
LQQRVEARNALAILFDRPPEALANEPTRLPDTALPAIDAGVPASLLGRRPDLHAAELRLR
GALANVDATRTGFYPTLSLTGSLGTSSTALGDLLKNPVATLGAGLALPFLQWNTARLTVG
VSQTQYEEAVVGFRQSLYTALSEVENALSSRTQLRDESIKLALALQEAQRAEKLSEVRYR
AGATALQPVLDAKDRRRTAEVSLALNRLNQFNATMTLYKALGGGAAVAS