Protein Info for GFF6380 in Variovorax sp. SCN45

Annotation: ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate)

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 50 100 150 200 263 PF00005: ABC_tran" amino acids 20 to 173 (154 residues), 115 bits, see alignment E=4.4e-37 PF12399: BCA_ABC_TP_C" amino acids 222 to 246 (25 residues), 33.1 bits, see alignment (E = 3.3e-12)

Best Hits

Swiss-Prot: 34% identical to PHNC_ALCFA: Phosphonates import ATP-binding protein PhnC (phnC) from Alcaligenes faecalis

KEGG orthology group: K01995, branched-chain amino acid transport system ATP-binding protein (inferred from 95% identity to vpe:Varpa_0213)

Predicted SEED Role

"Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1)" in subsystem ABC transporter branched-chain amino acid (TC 3.A.1.4.1) (TC 3.A.1.4.1)

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 (263 amino acids)

>GFF6380 ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) (Variovorax sp. SCN45)
MSLLKVDNLGKSFGGVKAVDGISFELPPGELLALIGPNGAGKSTTFNMVNGQLKADQGSI
TLDGQELVGRKPREIWRMGVGRTFQIAETFASLTVVENVQMALLSHDRKLFSMWRRAADH
KRDEALALLDQVGMKSQADRPCSVLAYGDVKRVELAIAMANSPKLLLMDEPTAGMAPKER
NSLMALTKELVIQRGMAVLFTEHSMDVVFAYADRMIVLARGRLIAQGKPLEIRDHPKVQE
VYFGTGKTFEKIAEKAAAVGEAA