Protein Info for HER17_RS12900 in Pectobacterium carotovorum WPP14

Annotation: LysR substrate-binding domain-containing protein

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 50 100 150 200 250 296 signal peptide" amino acids 1 to 20 (20 residues), see Phobius details PF00126: HTH_1" amino acids 9 to 65 (57 residues), 69.5 bits, see alignment E=1.9e-23 PF03466: LysR_substrate" amino acids 92 to 292 (201 residues), 119 bits, see alignment E=2e-38

Best Hits

Swiss-Prot: 36% identical to AMPR_CITKO: HTH-type transcriptional activator AmpR (ampR) from Citrobacter koseri

KEGG orthology group: K03566, LysR family transcriptional regulator, glycine cleavage system transcriptional activator (inferred from 73% identity to ctt:CtCNB1_2552)

Predicted SEED Role

"Glycine cleavage system transcriptional activator GcvA" in subsystem Glycine cleavage system or Orphan regulatory proteins

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 (296 amino acids)

>HER17_RS12900 LysR substrate-binding domain-containing protein (Pectobacterium carotovorum WPP14)
MAISLPLLALRTFVEVGQRGSIKAAAEALNVTSGAVSQQIRVLEERVGVVLFTRERQGLR
LTEAGADVHPSLLQAFEQIEKAVQTLDQIKARQTLTVSTVATFAASWLVPRLGRFNHRHP
HIEVRVEATSAVVDMRRDRVDVALRHGLGVYPGLDVTRLMAPVLVPVACPGLVTTDATLK
EPEDCLAYPLLHDSDRADWPLWLAAHGVAEDPRAERGTAFEDDFLLIRAAEAGQGLALVP
LEYAEDEIAAGRLVQVLDKPWPARFAYYVVTKPGAIQRQEVKAFVDWILEETQDIA