Protein Info for GFF430 in Variovorax sp. SCN45

Annotation: RND efflux system, membrane fusion protein

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 50 100 150 200 250 300 350 416 signal peptide" amino acids 1 to 33 (33 residues), see Phobius details TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 55 to 391 (337 residues), 290 bits, see alignment E=9.6e-91 PF13533: Biotin_lipoyl_2" amino acids 81 to 128 (48 residues), 44.2 bits, see alignment 2.6e-15 PF16576: HlyD_D23" amino acids 81 to 310 (230 residues), 59.2 bits, see alignment E=7.6e-20

Best Hits

KEGG orthology group: None (inferred from 92% identity to vap:Vapar_2562)

Predicted SEED Role

"Probable Co/Zn/Cd efflux system membrane fusion protein" in subsystem Cobalt-zinc-cadmium resistance

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

Find the best match in UniProt

Protein Sequence (416 amino acids)

>GFF430 RND efflux system, membrane fusion protein (Variovorax sp. SCN45)
MSNNEKKLSSAARKGLWPAVTGLTALLAVAAAVVGMYSFKAEANNTPAAPQATPVSVATV
ASSEINAWDEFSGRLEAVERVDVRSRVAGAVQAVHFREGALVKQGDLLVTIDPAPYAAEV
ERAEAQVASAQARQSFSRSEQERAKRLWDDKAIAQREFDERVNAGREADANLRAAQASLQ
SARLNLGYTQVRAPVSGRIGRIEVTVGNLVAAGPGAPVLTTLVSVSPIYASFDADEQVIT
RALKDLPTGSSARGQIESIPVQMGTAGLDGTPFTGKLQLIDNQVDAKSGTVRVRASFDNK
DGALIPGQFARIRMGQARSDSALLVSERAIGTDQNKKFVMVVGEDSKATYREVTLGASIN
GLRVVSKGLKAGDRVIVNGLQHIRPGALVAPQQVTMDAKADPKQQQPERVAEAAKS