Protein Info for Pf6N2E2_2960 in Pseudomonas fluorescens FW300-N2E2

Updated annotation (from data): ABC transporter for L-Lysine, permease component 2
Rationale: Specific phenotype on Gly-Glu; L-Lysine. There is another dedicated transporter for the dipeptide gly-glu so the basis of that phenotype is unclear.
Original annotation: Histidine ABC transporter, permease protein HisM (TC 3.A.1.3.1)

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 50 100 150 200 236 transmembrane" amino acids 20 to 46 (27 residues), see Phobius details amino acids 65 to 87 (23 residues), see Phobius details amino acids 106 to 124 (19 residues), see Phobius details amino acids 162 to 183 (22 residues), see Phobius details amino acids 200 to 221 (22 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 21 to 122 (102 residues), 49.3 bits, see alignment E=3e-17 PF00528: BPD_transp_1" amino acids 44 to 227 (184 residues), 65.3 bits, see alignment E=3.1e-22

Best Hits

Swiss-Prot: 59% identical to HISM_SALTI: Histidine transport system permease protein HisM (hisM) from Salmonella typhi

KEGG orthology group: K10015, histidine transport system permease protein (inferred from 99% identity to pba:PSEBR_a1153)

Predicted SEED Role

"Histidine ABC transporter, permease protein HisM (TC 3.A.1.3.1)" in subsystem Arginine and Ornithine Degradation (TC 3.A.1.3.1)

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

See A0A165ZC74 at UniProt or InterPro

Protein Sequence (236 amino acids)

>Pf6N2E2_2960 ABC transporter for L-Lysine, permease component 2 (Pseudomonas fluorescens FW300-N2E2)
MIELLQEYWRPFLYSDGVNVTGLAMTLWLLSASLLIGFLVSIPLSIARVSPKFYVRWPVQ
FYTYLFRGTPLYIQLLICYTGIYSIAAVRAQPLLDSFFRDAMNCTILAFALNTCAYTTEI
FAGAIRSMNHGEVEAAKAYGLTGWRLYTYVIMPSALRRSLPYYSNEVILMLHSTTVAFTA
TVPDVLKVARDANSATFLTFQSFGIAALIYLTVTFALVGLFRLAERRWLAFLGPTH