Protein Info for GFF1600 in Variovorax sp. SCN45

Annotation: Branched-chain amino acid ABC transporter, permease protein LivH (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 50 100 150 200 250 295 transmembrane" amino acids 12 to 40 (29 residues), see Phobius details amino acids 60 to 80 (21 residues), see Phobius details amino acids 92 to 111 (20 residues), see Phobius details amino acids 147 to 166 (20 residues), see Phobius details amino acids 192 to 213 (22 residues), see Phobius details amino acids 225 to 251 (27 residues), see Phobius details amino acids 259 to 281 (23 residues), see Phobius details PF02653: BPD_transp_2" amino acids 9 to 279 (271 residues), 130.6 bits, see alignment E=3.1e-42

Best Hits

KEGG orthology group: K01997, branched-chain amino acid transport system permease protein (inferred from 38% identity to dat:HRM2_48750)

Predicted SEED Role

"High-affinity branched-chain amino acid transport system permease protein LivH (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 (295 amino acids)

>GFF1600 Branched-chain amino acid ABC transporter, permease protein LivH (TC 3.A.1.4.1) (Variovorax sp. SCN45)
MFSDLVQHLVNGLVMGAVVALPALGLTLIFSVLGFINFSIAAQMTVGAYGGWLVNTHLHW
PLVPVLVAAFALAGLVGVVGDRLALVPMRRKISAHTPLMVAIVSIALNLALENALRFGFG
SDLNSFEMPIARDVQFAGIRVGPQQVHNLGIALAIAVVLAAFFTVTRVGKAMRAVADNAD
LARLKGIDPTRLSNLATFIGMGLAGIGGALLAIDTSVDPSTGSRLLLIIFSASVLGGLTS
LTGAVLGALLIGMVSEVSLLVISPVYQSATAFAAILLVLLIRPSGLFAGASGVRK