Protein Info for LRK54_RS03835 in Rhodanobacter denitrificans FW104-10B01

Annotation: 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 50 100 150 194 PF07638: Sigma70_ECF" amino acids 14 to 191 (178 residues), 36.1 bits, see alignment E=1.6e-12 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 23 to 190 (168 residues), 72.4 bits, see alignment E=1.7e-24 PF08281: Sigma70_r4_2" amino acids 135 to 186 (52 residues), 66.2 bits, see alignment E=4e-22 PF04545: Sigma70_r4" amino acids 140 to 187 (48 residues), 43 bits, see alignment E=6.7e-15 PF00196: GerE" amino acids 147 to 186 (40 residues), 26.9 bits, see alignment 7.4e-10

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 54% identity to xop:PXO_04572)

Predicted SEED Role

No annotation

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 (194 amino acids)

>LRK54_RS03835 RNA polymerase sigma factor (Rhodanobacter denitrificans FW104-10B01)
MNGVAGTLDTDLLGDARETPATLDAFLAQVERRAFRMAELQLRQREDAMDAVQDAMLRLV
RHYRDKPAMEWAPLFWGILRRRVVDLQRRRKVRSIVVGWLGGGRDDDGDELPAWEPADPG
QDPLGRLHDVQSYADLAAAVRQLPQRQREAFMLRMLEGLDVAETAQAMGCSEGSVKTHLS
RAMHHLRDQLEDWR