Protein Info for BPHYT_RS08240 in Burkholderia phytofirmans PsJN

Annotation: RNA polymerase subunit sigma-24

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 50 100 150 176 PF04542: Sigma70_r2" amino acids 9 to 72 (64 residues), 57.4 bits, see alignment E=1.6e-19 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 9 to 153 (145 residues), 82.7 bits, see alignment E=1.2e-27 PF08281: Sigma70_r4_2" amino acids 99 to 151 (53 residues), 60.6 bits, see alignment E=1.4e-20 PF04545: Sigma70_r4" amino acids 104 to 153 (50 residues), 38.9 bits, see alignment E=7.5e-14

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 100% identity to bpy:Bphyt_1666)

Predicted SEED Role

"RNA polymerase sigma-54 factor RpoN" in subsystem Flagellar motility or Flagellum or Transcription initiation, bacterial sigma factors

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

See B2T3B5 at UniProt or InterPro

Protein Sequence (176 amino acids)

>BPHYT_RS08240 RNA polymerase subunit sigma-24 (Burkholderia phytofirmans PsJN)
MNFEAEVISWLPQLRRYARALTGDHAWADDLVQDTAERALARWAAFRPDSNLRAWLLTIL
RHLYIDQLRGRREIAVDDESAPWRNLEAPQGEVDGLVLRDLQRALYCLPVEQREVLLLVC
VEELSYQEASRALGVPIGTVMSRLSRAREHMRALLTEGPAHGPARKNPPLKVVRNP