Protein Info for PS417_12060 in Pseudomonas simiae WCS417

Updated annotation (from data): xylitol ABC transporter, permease component
Rationale: Specifically important for utilizing xylitol.
Original annotation: sugar ABC transporter permease

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 50 100 150 200 250 300 325 transmembrane" amino acids 25 to 46 (22 residues), see Phobius details amino acids 54 to 73 (20 residues), see Phobius details amino acids 77 to 96 (20 residues), see Phobius details amino acids 101 to 123 (23 residues), see Phobius details amino acids 129 to 149 (21 residues), see Phobius details amino acids 162 to 191 (30 residues), see Phobius details amino acids 220 to 241 (22 residues), see Phobius details amino acids 259 to 289 (31 residues), see Phobius details amino acids 301 to 320 (20 residues), see Phobius details PF02653: BPD_transp_2" amino acids 53 to 315 (263 residues), 163.9 bits, see alignment E=2.2e-52

Best Hits

Swiss-Prot: 49% identical to RBSC_ECOLI: Ribose import permease protein RbsC (rbsC) from Escherichia coli (strain K12)

KEGG orthology group: K10440, ribose transport system permease protein (inferred from 95% identity to psb:Psyr_2570)

MetaCyc: 49% identical to ribose ABC transporter membrane subunit (Escherichia coli K-12 substr. MG1655)
ABC-28-RXN

Predicted SEED Role

"Inositol transport system permease protein" in subsystem Inositol catabolism

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

See A0A1N7UKA9 at UniProt or InterPro

Protein Sequence (325 amino acids)

>PS417_12060 xylitol ABC transporter, permease component (Pseudomonas simiae WCS417)
MNAKTITAPVTAAPRNRLRLSLDRFGLPLVFILLCVVMAFSSEYFMTWRNWMDILRQTSI
NGILAVGMTYVILTKGIDLSVGSILAFAGLCSAMVATQGYGLLAAVSAGMFAGAMLGVVN
GFMVANLSIPPFVATLGMLSIARGMTFILNDGSPITDLPDAYLALGIGKIGPIGVPIIIF
AVVALIFWMVLRYTTYGRYVYAVGGNEKSARTSGIGVRKVMFSVYVVSGLLAGLAGVVLS
ARTTSALPQAGVSYELDAIAAVVIGGTSLSGGTGSIVGTLFGALLIGVINNGLNLLGVSS
YYQQVAKGLIIVFAVLIDVWRKKKR