Protein Info for GFF6134 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 50 100 150 200 250 293 transmembrane" amino acids 9 to 39 (31 residues), see Phobius details amino acids 59 to 81 (23 residues), see Phobius details amino acids 93 to 114 (22 residues), see Phobius details amino acids 132 to 158 (27 residues), see Phobius details amino acids 179 to 212 (34 residues), see Phobius details amino acids 214 to 234 (21 residues), see Phobius details amino acids 241 to 261 (21 residues), see Phobius details amino acids 267 to 285 (19 residues), see Phobius details PF02653: BPD_transp_2" amino acids 6 to 277 (272 residues), 163.2 bits, see alignment E=3.5e-52

Best Hits

KEGG orthology group: K01997, branched-chain amino acid transport system permease protein (inferred from 76% identity to axy:AXYL_00657)

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 (293 amino acids)

>GFF6134 ABC transporter, permease protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) (Variovorax sp. SCN45)
VLDQQLVNALSLGCVYALFALGFTLIFGVLGVINLSHGAVFMVGAYAAAEFMRVSGMPLW
VGLPFAFAFCGVLGFLVDVLVLKPLRKRNAPHLIPMIATIGVAIILNNGIQGIFGAENLR
FPPGTIPDDALVFAGIHVTVLELGIVLASFVLMGVLMLSLQRTQLGRALRAIAESPKAAY
LVGVNVEGLFYLTSFVAAGLGGVAGVLIGLYSNALFPLMGQPMLEKGIAVIILGGMGDIR
GALLGGLFLGFAEVLSVAYVGSNMRDAVAFGLLFLVLLVRPKGLFGSLKERKV