Protein Info for LRK55_RS09025 in Rhodanobacter denitrificans MT42

Annotation: sigma-70 family RNA polymerase sigma factor

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 50 100 150 189 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 8 to 174 (167 residues), 71.3 bits, see alignment E=3.7e-24 PF04539: Sigma70_r3" amino acids 40 to 87 (48 residues), 32.4 bits, see alignment E=8.4e-12 PF04545: Sigma70_r4" amino acids 121 to 174 (54 residues), 71.3 bits, see alignment E=3.8e-24

Best Hits

Predicted SEED Role

"RNA polymerase sigma factor RpoD" in subsystem Flagellum or Macromolecular synthesis operon or Transcription factors cyanobacterial RpoD-like sigma factors 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

Find the best match in UniProt

Protein Sequence (189 amino acids)

>LRK55_RS09025 sigma-70 family RNA polymerase sigma factor (Rhodanobacter denitrificans MT42)
MGSREGWKLSTYATWWIRQSITRALADKGGEIRIPVHMMEKLNQVFGVQRTLERELGRAP
STEETAAALNTDAAFVTRTMRMRRTIVDIATLDPESEWVTGGDSAIDHACQENSNAQIDM
ALSSLDKREAEVVRLRFGIAMDGELTLEEVGKRFGVTRERIRQIEKKALMRLRHPSRAAG
LADLLDSQP