Protein Info for AO356_04565 in Pseudomonas fluorescens FW300-N2C3

Annotation: RNA polymerase subunit sigma

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 50 100 150 200 250 315 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details PF03888: MucB_RseB" amino acids 23 to 185 (163 residues), 174.3 bits, see alignment E=1.8e-55 PF17188: MucB_RseB_C" amino acids 210 to 307 (98 residues), 88.2 bits, see alignment E=3.5e-29

Best Hits

KEGG orthology group: K03598, sigma-E factor negative regulatory protein RseB (inferred from 96% identity to pba:PSEBR_a1340)

Predicted SEED Role

"Sigma factor RpoE negative regulatory protein RseB precursor" in subsystem 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 A0A0N9VYU3 at UniProt or InterPro

Protein Sequence (315 amino acids)

>AO356_04565 RNA polymerase subunit sigma (Pseudomonas fluorescens FW300-N2C3)
LRAIPLFTLLLGGWCAIPAHADEAQDWLSRLSQAEQQQSFQGTFVYERNGSFSTHNIWHR
VQDGKVRERLLQLDGSAQEVLRIDGHTQCVSGSLIAGLGNTPDGTSRALDPQKLKNWYDL
AVIGKSRVAGRQAVIVALTPKDQHRYGFELHLDKETGLPLKSLLLNDKGQLLERFQFTRL
NVAVPTDGDLQASAECKAVAQEPGKAVAVKAAWHSDWLPPGFELTSSAMRKDPDTQIQVS
SLMYDDGLARFSVFLEPLNGANATDTRTQLGPTAAVSRRLTTPQGEMMVTVVGEIPIGTA
ERIALSMRSDVTATQ