Protein Info for GFF4973 in Variovorax sp. SCN45

Annotation: Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1)

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 50 100 150 200 250 300 327 transmembrane" amino acids 10 to 28 (19 residues), see Phobius details amino acids 34 to 54 (21 residues), see Phobius details amino acids 61 to 80 (20 residues), see Phobius details amino acids 87 to 109 (23 residues), see Phobius details amino acids 115 to 133 (19 residues), see Phobius details amino acids 162 to 181 (20 residues), see Phobius details amino acids 212 to 235 (24 residues), see Phobius details amino acids 247 to 275 (29 residues), see Phobius details amino acids 287 to 309 (23 residues), see Phobius details PF02653: BPD_transp_2" amino acids 34 to 296 (263 residues), 167.6 bits, see alignment E=1.6e-53

Best Hits

KEGG orthology group: K01998, branched-chain amino acid transport system permease protein (inferred from 76% identity to axy:AXYL_00526)

Predicted SEED Role

"Branched-chain amino acid transport system permease protein LivM (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)

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 (327 amino acids)

>GFF4973 Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1) (Variovorax sp. SCN45)
MSASTVSSPWWDRAVLLGMAVVLAVLPFTTSGYVLYVVNLLMVFSVLALGMHLVIGETGQ
FALSHAAFFGIGIYTAGLINNQWQPPFFVSILAGALLSAALGWVIGLLALRMRDIYLALA
TFAFGEAMQWVFLNWESVTNGSNGLQMKPASLGGYQLMNDLQAYPFVIAIAALMLWLTVT
LSRSRLGSSFRAVRESDVAAVAMGVNTRTVKVTAFVLSAAFAGVAGGMYTLFTSFIHPES
LGFQTTILILTMVVVGGLGSVRGAVAGAIVFGLASELLRQAPSYQEIIYGGILMLFMMFL
PKGMASLFAARRKSQRAASVKVVEKHA