Protein Info for ECOLIN_RS03310 in Escherichia coli Nissle 1917

Annotation: LysR family transcriptional regulator

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 50 100 150 200 250 300 PF00126: HTH_1" amino acids 12 to 70 (59 residues), 66.4 bits, see alignment E=1.8e-22 PF03466: LysR_substrate" amino acids 137 to 298 (162 residues), 40.5 bits, see alignment E=2.1e-14

Best Hits

Swiss-Prot: 89% identical to YBDO_ECOLI: Uncharacterized HTH-type transcriptional regulator YbdO (ybdO) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 99% identity to eum:ECUMN_0698)

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)

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 (300 amino acids)

>ECOLIN_RS03310 LysR family transcriptional regulator (Escherichia coli Nissle 1917)
MANLYDLKKFDLNLLVIFECIYQHLSISKAAESLYITPSAVSQSLQRLRAQFNDPLFIRS
GKGIAPTTTGLNLHHHLEKNLRGLEQTINIVNKSELKKNFIIYGPQLISCTNNNMLIRCL
RQDTSIDIECHDILLSAENAEELLVQRKTDLAITLQPVISRSVICMPLHTIRNSLICSNK
HPRITDTSNYEQIIAEEFTLLISKSAGIDEIQMDIDERFMNRKVSFRSSSLMTIINSISV
TDLLGIVPTELYDLHRDFLKLKEIKLEQPLPAVKLYISYNKASLNNLVFSRFIDRLNDSF