Protein Info for GFF3864 in Variovorax sp. SCN45

Annotation: Sigma factor RpoE negative regulatory protein RseA

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 50 100 150 200 225 transmembrane" amino acids 78 to 93 (16 residues), see Phobius details amino acids 107 to 129 (23 residues), see Phobius details PF03872: RseA_N" amino acids 5 to 90 (86 residues), 56.2 bits, see alignment E=2.2e-19

Best Hits

KEGG orthology group: K03597, sigma-E factor negative regulatory protein RseA (inferred from 82% identity to vpe:Varpa_1537)

Predicted SEED Role

"Sigma factor RpoE negative regulatory protein RseA" 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)

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

Find the best match in UniProt

Protein Sequence (225 amino acids)

>GFF3864 Sigma factor RpoE negative regulatory protein RseA (Variovorax sp. SCN45)
MNQTMTVREQVSALADGHLQGESFAQAIDAICADSESRAAWQAYHVVGDVLRSGSHSPCS
DSSAFLARFQQRLAAEPVVLAPVAAPVAAPVAIPVQRRAEAANEPVFRWKLVAGAASLMA
VAAIGWTLVGNGAAIPQPGAQIASVQQQQQPAVNSVLAAAALSGPQQPAGATLTPTRVIV
GNGSPQVMLRDPRLDQLLEAHQQAGGASQMPSGFLRNATFEGPTR