Protein Info for GFF1476 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 50 100 150 200 250 286 PF04542: Sigma70_r2" amino acids 15 to 76 (62 residues), 51.3 bits, see alignment E=8.4e-18 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 16 to 157 (142 residues), 44.2 bits, see alignment E=7.9e-16 PF08281: Sigma70_r4_2" amino acids 105 to 154 (50 residues), 37.4 bits, see alignment 1.6e-13

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 84% identity to sjp:SJA_C1-15300)

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 (286 amino acids)

>GFF1476 RNA polymerase ECF-type sigma factor (Sphingobium sp. HT1-2)
MEGGTQMDAADSFDPLRPRLIRVAYRMLGSVVDAEDVVQDAFIRWMGTDRSAVREPEAFL
RRTVTRLCLDQMKSARAQRETYVGPWLPEPVVEEADEEEDVTLPLMLALERLSPLERAAF
LLHDVFGLAFDEVARTIRRDAAACRQLAARARDHVRDARPRFQVEKQRGLEIAGAFFAAS
RSGDMGALGALLAQDVSFHSDGGGKRPAAIRPAIGHGQVMQVHKALAVLFGKYGSTLLRT
CMVNGLPGFVTREADGELQTTALDIEDGQVTAIYIMRNPDKLRHLH