Protein Info for GFF4630 in Variovorax sp. SCN45

Annotation: O-antigen export system permease protein RfbD

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 50 100 150 200 267 transmembrane" amino acids 46 to 66 (21 residues), see Phobius details amino acids 78 to 100 (23 residues), see Phobius details amino acids 121 to 143 (23 residues), see Phobius details amino acids 150 to 174 (25 residues), see Phobius details amino acids 181 to 201 (21 residues), see Phobius details amino acids 235 to 257 (23 residues), see Phobius details PF01061: ABC2_membrane" amino acids 26 to 226 (201 residues), 54.6 bits, see alignment E=5.6e-19

Best Hits

KEGG orthology group: K09690, lipopolysaccharide transport system permease protein (inferred from 92% identity to vpe:Varpa_0792)

Predicted SEED Role

No annotation

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 (267 amino acids)

>GFF4630 O-antigen export system permease protein RfbD (Variovorax sp. SCN45)
MSQVHSNLHRSALADWWGGTRRTDIWWTLAWFDIVLRYRRSMLGPLWLTLSMGVMIGGMG
PLYASLFGTHLDKFFPHLALGVIFWGLFSTVVSDACNAFVGSSNYLKQGYFPISLFVWRG
LARNLIQFAHQIVLYIPVALWAGVSLSWSALLIIPAFLILIVNAHALGLLLGLVCTRYRD
VTQIVTSIMQMLMFLTPVFWLPENLPGRAKYVLWNPFAQMLDLLRTPLMGGVAHIHSWIG
IGVWTVLCLTLASVLFVKYRRRVVYWL