Protein Info for GFF2279 in Variovorax sp. SCN45

Annotation: ABC transporter, permease 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 50 100 150 200 250 300 346 transmembrane" amino acids 17 to 40 (24 residues), see Phobius details amino acids 42 to 42 (1 residues), see Phobius details amino acids 44 to 50 (7 residues), see Phobius details amino acids 64 to 83 (20 residues), see Phobius details amino acids 95 to 114 (20 residues), see Phobius details amino acids 120 to 139 (20 residues), see Phobius details amino acids 151 to 175 (25 residues), see Phobius details amino acids 195 to 217 (23 residues), see Phobius details amino acids 245 to 265 (21 residues), see Phobius details amino acids 283 to 308 (26 residues), see Phobius details amino acids 314 to 337 (24 residues), see Phobius details PF02653: BPD_transp_2" amino acids 121 to 329 (209 residues), 59 bits, see alignment E=2.1e-20

Best Hits

KEGG orthology group: K01997, branched-chain amino acid transport system permease protein (inferred from 81% identity to pna:Pnap_0801)

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 (346 amino acids)

>GFF2279 ABC transporter, permease protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) (Variovorax sp. SCN45)
MDLSIASILTLDGLTNGAIYALLGMGIVLVFTVTRVIFIPQGEFVAYGALTLAIFQTGKT
PGTVWLLLILAGVAALMDLVTIWRHSGSAAAGLKAALRTFALPAVVCAVSAWAGPRNLPI
GVQALLTVFIVTAFGPLVYRVAYQSLAGASSLVLLIVSVGVHFAMTGLGLLFFGAEGFRN
PPFWDERMALGPLNVSGQALIIFGVSAALIVLLWLFFERSLYGKALRATAVNRLGARLMG
ISTQAAGQLTFAMAALIGALSGLLIGPTTTVFYDSGFLIGLKGFVAGVIAGLASYPGALV
GALAVGVIEAFGSFWASSFKEVIVFTIILPVLLWRSLRSGHSDEEH