Protein Info for GFF2179 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: LysR family transcriptional regulator YbhD

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 50 100 150 200 250 302 transmembrane" amino acids 94 to 113 (20 residues), see Phobius details PF00126: HTH_1" amino acids 5 to 64 (60 residues), 80.9 bits, see alignment E=7.9e-27 PF03466: LysR_substrate" amino acids 89 to 291 (203 residues), 176.1 bits, see alignment E=9.8e-56

Best Hits

Swiss-Prot: 39% identical to YBHD_ECOLI: Uncharacterized HTH-type transcriptional regulator YbhD (ybhD) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 68% identity to vei:Veis_1352)

Predicted SEED Role

"LysR family transcriptional regulator YbhD" 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)

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 (302 amino acids)

>GFF2179 LysR family transcriptional regulator YbhD (Hydrogenophaga sp. GW460-11-11-14-LB1)
MNFDLADLRAFIAVADLGSFSAASQALHLSQPALSRRVEKLEQALGFRLFDRTTRKVELN
AMGRSFIPRARHVLNELESALLGMTDLSDRLRGLVTVACVPSAVNTFVANALIEFHRLYP
RIRVRLMDESATEVLMAVARSEADFGISYLGTQEPDLEFEPLLEEDFVLACLPAHPLAQR
KRVTWSELAEHECVMLAPGSGNRMLIDQALAALPVRPSWSCEVSHVPALISLIESGIGIG
AVPRFALSSRTPAALSTVPLAEPRVARTIGMIRRRGRPLGPAAQAFHDLMTRSRVAANRT
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