Protein Info for SO1860 in Shewanella oneidensis MR-1

Annotation: DNA-binding response regulator, LuxR family (NCBI ptt file)

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 50 100 150 214 PF00072: Response_reg" amino acids 4 to 116 (113 residues), 105.6 bits, see alignment E=2.5e-34 PF00196: GerE" amino acids 148 to 203 (56 residues), 66.1 bits, see alignment E=2.6e-22

Best Hits

Swiss-Prot: 71% identical to UVRY_SHIFL: Response regulator UvrY (uvrY) from Shigella flexneri

KEGG orthology group: K07689, two-component system, NarL family, invasion response regulator UvrY (inferred from 98% identity to shw:Sputw3181_2386)

Predicted SEED Role

"BarA-associated response regulator UvrY (= GacA = SirA)" in subsystem Pseudomonas quinolone signal PQS or Quorum sensing regulation in Pseudomonas or Type III secretion system orphans

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 Q8EFV5 at UniProt or InterPro

Protein Sequence (214 amino acids)

>SO1860 DNA-binding response regulator, LuxR family (NCBI ptt file) (Shewanella oneidensis MR-1)
MISIYLVDDHELVRTGIRRILEDERGIKVVGEAPDGETAVQWARQNEADVILMDMNMPVM
GGLEATRKILRYQPHAKIIVLTVHTEDPFPSKVMQAGASGYLTKGATPPEVLQAIRQVSR
GQRYLSPEIAQQMALSQFNPADENPFKALSERELQIMLMITNGEKVNDISEQLNLSPKTV
NSYRYRLFAKLGISGDVELTRLAIRYKMLDAGHF