Protein Info for HER17_RS20300 in Pectobacterium carotovorum WPP14

Annotation: amino acid 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 50 100 150 200 250 300 364 transmembrane" amino acids 25 to 47 (23 residues), see Phobius details amino acids 94 to 113 (20 residues), see Phobius details amino acids 122 to 141 (20 residues), see Phobius details amino acids 154 to 179 (26 residues), see Phobius details amino acids 192 to 218 (27 residues), see Phobius details amino acids 231 to 248 (18 residues), see Phobius details amino acids 288 to 312 (25 residues), see Phobius details amino acids 331 to 348 (18 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 153 to 249 (97 residues), 67.2 bits, see alignment E=7.5e-23 PF00528: BPD_transp_1" amino acids 170 to 357 (188 residues), 89.7 bits, see alignment E=1e-29

Best Hits

Swiss-Prot: 81% identical to YHDY_ECOLI: Inner membrane amino-acid ABC transporter permease protein YhdY (yhdY) from Escherichia coli (strain K12)

KEGG orthology group: K09971, general L-amino acid transport system permease protein (inferred from 96% identity to pwa:Pecwa_0231)

Predicted SEED Role

"Glutamate Aspartate transport system permease protein GltK (TC 3.A.1.3.4)" (TC 3.A.1.3.4)

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 (364 amino acids)

>HER17_RS20300 amino acid ABC transporter permease (Pectobacterium carotovorum WPP14)
MTMNHYTQGRQSPLFRTIQWARRNLFSSISNSLLTLFCLWLLWVAIPPLLNWAIFQANWI
GTTRNDCTRDGACWVFIHARFGHFMYGLYPAEEVWRINFALAIGLLSILPMFLKSIPYRG
RYIAVWTVVYPLVAWWLLYGGFGGLSRVETYQWGGLTLTLIIAAVGIAGALPLGILLALG
RRSTLPIVRMLSVVFIEFWRGVPLITVLFMSSVMLPLFLTEGTTIDKLLRALVGVILFQS
AYVAEVVRGGLQALPKGQYEAAESLGLGYWRMQGLVILPQALKMVIPGLVNTIISLFKDT
SLVIIIGLFDLFSSIQQATVDPTWLGMSTEGYVFAAMVYWIFCFSMSRYSQHLENRFNTG
HKSH