Protein Info for PS417_06325 in Pseudomonas simiae WCS417

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 50 100 150 200 250 298 PF00126: HTH_1" amino acids 12 to 65 (54 residues), 76.3 bits, see alignment E=1.4e-25 PF03466: LysR_substrate" amino acids 91 to 287 (197 residues), 159.1 bits, see alignment E=1e-50

Best Hits

Swiss-Prot: 35% identical to TTDR_ECOL6: HTH-type transcriptional activator TtdR (ttdR) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: None (inferred from 98% identity to pfs:PFLU1294)

Predicted SEED Role

"Transcriptional regulator, LysR family, in formaldehyde detoxification operon" in subsystem Glutathione-dependent pathway of formaldehyde detoxification

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

See U1UML0 at UniProt or InterPro

Protein Sequence (298 amino acids)

>PS417_06325 LysR family transcriptional regulator (Pseudomonas simiae WCS417)
MLENRWEGIDEFVAVAECSQFTAAAERLGVSSSHISRQVARLEERLQTRLLYRSTRKVTL
TEAGQTFLQHCQRLQDGREEALRAVGDLTSEPKGMLRMTCAVAYGERFIVPLVTRFMGLY
PQLRVDIELSNRQLDLVHEGLDLAIRLGRLQDSRMVASRLAPRRMYLCASPSYLARYGRP
HSLSELSRHNCLIGSSDIWQLAQDGREFSQRVQGNWRCNSGQAVLDAALQGVGLCQLPDY
YVLEHLHSGALVSLLEAHQPPNTAVWALYPQQRHLSPKVRKLVDFLKVGLAEKPEYSG