Protein Info for GFF4542 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: LysR-family transcriptional regulator YbeF

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 50 100 150 200 250 317 transmembrane" amino acids 244 to 263 (20 residues), see Phobius details PF00126: HTH_1" amino acids 31 to 88 (58 residues), 53.6 bits, see alignment E=1.8e-18 PF03466: LysR_substrate" amino acids 116 to 317 (202 residues), 67.4 bits, see alignment E=1.2e-22

Best Hits

Swiss-Prot: 68% identical to YBEF_ECOLI: Uncharacterized HTH-type transcriptional regulator YbeF (ybeF) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 99% identity to sec:SC0663)

Predicted SEED Role

"LysR-family transcriptional regulator YbeF"

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

Find the best match in UniProt

Protein Sequence (317 amino acids)

>GFF4542 LysR-family transcriptional regulator YbeF (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
VSDNNQAERQPADQHLQDKPQIFRTLRNIDLNLLTIFEAVYVHKGIVNAAKILNLTPSAI
SQSIQKLRTIFPDPLFIRKGQGVTPTTYATHLHEYISQGLESILGALDLTGSYDKQRTIT
IGTTPSVGALVMPIIYQAIRPRYPQLLLRNIPVDDAESQLSQFQTDLIINTHSYNNRSIQ
HHVLFSDTLEIVCRQHHPCLANAITEERLNSADHTFLMLEGQHLSLLRQRLQETFPDQQI
SFSSYNIFTIASLIASSDLLGLMPTRFYDLFSRCWPLERLPYAPVNSEQVEFSLHYNKLS
LRDPVLENVIDIIREAF