Protein Info for GFF2615 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: LysR family transcriptional regulator YdcI

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 50 100 150 200 250 307 signal peptide" amino acids 1 to 32 (32 residues), see Phobius details PF00126: HTH_1" amino acids 13 to 72 (60 residues), 67.9 bits, see alignment E=5.9e-23 PF03466: LysR_substrate" amino acids 100 to 305 (206 residues), 121.2 bits, see alignment E=4e-39

Best Hits

Swiss-Prot: 83% identical to YDCI_ECOLI: Uncharacterized HTH-type transcriptional regulator YdcI (ydcI) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 100% identity to seh:SeHA_C1803)

Predicted SEED Role

"LysR family transcriptional regulator YdcI" in subsystem DNA-binding regulatory proteins, strays

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 (307 amino acids)

>GFF2615 LysR family transcriptional regulator YdcI (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MEKNGLFSQRIRLRHLHTFVAVAQQGTLGRAAETLNLSQPALSKTLNELEQLTGTRLFER
GRLGAQLTVPGEQFLTHAVKVLDALNTAGQALNRKEDASADVVRVGALPTAALGILPAAI
GRFHQQQKSTSLQVATMNNTMLLAGLKSGEIDLGIGRMSDPELMGGLNYELLFLESLKLV
VRPGHPLLQETITLSRVMEWPVVVSPKGTVPRQNAEALLQSQGCKMPAGCIETLSASLSR
QLTVDYDYVWFVPSGAVKEDLRQATLVSLPVPTQSAGEPIGILTRVDIPLSTGAQMLIAA
IRKSMPL