Protein Info for GFF4791 in Variovorax sp. SCN45

Annotation: RNA polymerase ECF-type 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 50 100 150 200 250 300 350 411 PF04542: Sigma70_r2" amino acids 19 to 79 (61 residues), 28.9 bits, see alignment E=8e-11 PF20239: DUF6596" amino acids 183 to 283 (101 residues), 100 bits, see alignment E=8.3e-33

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 85% identity to vpe:Varpa_3989)

Predicted SEED Role

"ECF-family sigma factor"

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 (411 amino acids)

>GFF4791 RNA polymerase ECF-type sigma factor (Variovorax sp. SCN45)
MTQDPAAHQAAERAARDSYGRLLAILSARTHDIAASEDALADAFARALERWPADGIPDRP
DAWLLSVARHRKLDAWRHTRVQDEATQALMLLAGEVDGSDADGAAVPDERLRLLFVCAHP
AIDAPARAPLMLQTVLGLDAARMASAFLTSPSTLGQRLVRAKARIRAAGIPFEYPQAREL
PQRLQDVLDGIYAAYGTGWDDVDGADAIPRNLTAEAIDLGRILCNLMPREPEPLGLLALM
LFCEARTAARRNDAGAYVPLDQQDITRWNHQLLAEAEHHLRHASSMQALGAYQLEAAIQS
AHCERRAGASVPAETLVSLYEGLLALRHSIGAQVSLACALANARGPETGLQALDAIPAAD
VTNYQPFWAARAHLLAAGGARAASRQAYDRAIGLSTSAVVRAYLNAMSQRL