Protein Info for GFF4047 in Sphingobium sp. HT1-2

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 50 100 150 201 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 22 to 159 (138 residues), 67.3 bits, see alignment E=6.4e-23 PF04542: Sigma70_r2" amino acids 22 to 79 (58 residues), 39.2 bits, see alignment E=1e-13 PF07638: Sigma70_ECF" amino acids 40 to 170 (131 residues), 21.2 bits, see alignment E=4.7e-08 PF08281: Sigma70_r4_2" amino acids 109 to 157 (49 residues), 49.3 bits, see alignment E=6.3e-17 PF04545: Sigma70_r4" amino acids 116 to 158 (43 residues), 26.8 bits, see alignment 6e-10

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 91% identity to sch:Sphch_1018)

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)

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 (201 amino acids)

>GFF4047 RNA polymerase ECF-type sigma factor (Sphingobium sp. HT1-2)
VHRVRAKLEWFKTVILPQEAALRGRLRRILPSTHELEDMVAEVLARAYATENWENVTTGR
AYLFTIARNLVIDTARRNKVVSFETIADLELLGGENTIEAQLHAREALRQVEAIVDSLPT
QCRRVFILRRIHEKSMLEIAEEMSLSVSTVEKHLAKAIGIVMRAWAEREETDFERAGVGT
RFKQRGQGRDRVGSRAPAGQA