Protein Info for Pf6N2E2_2958 in Pseudomonas fluorescens FW300-N2E2

Updated annotation (from data): ABC transporter for L-Lysine, periplasmic substrate-binding component
Rationale: Specific phenotype on L-Lysine; Gly-Glu. There is another dedicated transporter for the dipeptide gly-glu so the basis of that phenotype is unclear.
Original annotation: Lysine-arginine-ornithine-binding periplasmic protein precursor (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 50 100 150 200 260 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF00497: SBP_bac_3" amino acids 28 to 252 (225 residues), 137.3 bits, see alignment E=2.7e-44 PF09084: NMT1" amino acids 111 to 184 (74 residues), 33.5 bits, see alignment E=4.3e-12

Best Hits

Swiss-Prot: 46% identical to ARGT_SALTY: Lysine/arginine/ornithine-binding periplasmic protein (argT) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K10013, lysine/arginine/ornithine transport system substrate-binding protein (inferred from 98% identity to pba:PSEBR_a1155)

Predicted SEED Role

"Lysine-arginine-ornithine-binding periplasmic protein precursor (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 A0A159ZWV1 at UniProt or InterPro

Protein Sequence (260 amino acids)

>Pf6N2E2_2958 ABC transporter for L-Lysine, periplasmic substrate-binding component (Pseudomonas fluorescens FW300-N2E2)
MKKALLTLSALALCMAAGVATAKEYKELRFGVDPSYAPFESKAADGSLVGFDIDLGNAIC
AELKVKCKWVESDFDGMIPGLKANKFDGVISSMTVTPAREKAIDFSSELFSGPTAYVFKK
GSGLSEDVASLKGKTVGYEQGTIQEAYAKAVLDKAGVKTQAYQNQDQVYADLTSGRLDAA
IQDMLQAELGFLKSPKGEGYEVSKPVDSELLPSKTAIGIRKGNSELKALLNKGIKALHDD
GKYAEIQKKHFGDLNLYSGK