Protein Info for AMB_RS09285 in Magnetospirillum magneticum AMB-1

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 50 100 150 177 PF04542: Sigma70_r2" amino acids 2 to 63 (62 residues), 53 bits, see alignment E=3.6e-18 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 3 to 154 (152 residues), 77.7 bits, see alignment E=4e-26 PF08281: Sigma70_r4_2" amino acids 99 to 150 (52 residues), 49.7 bits, see alignment E=3.4e-17 PF04545: Sigma70_r4" amino acids 104 to 152 (49 residues), 37.1 bits, see alignment E=2.7e-13

Best Hits

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 100% identity to mag:amb1834)

Predicted SEED Role

"RNA polymerase sigma-70 factor, ECF subfamily"

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

See Q2W687 at UniProt or InterPro

Protein Sequence (177 amino acids)

>AMB_RS09285 RNA polymerase sigma factor (Magnetospirillum magneticum AMB-1)
MAHRGELLRFVQGMVGNAHLAEDLVQETLLRAVAAQQAFAGRSRPLTWLSAIALNALRDH
FRRPATRREESAAPEDFAGLADQCEDAVTALMKAEMGDCITAHLSALPDRLREVLVLHDM
GGAGHAEVAAALGITEGNARVLLHRARAALRERLGKHCRIDLGGDPVPCSPREDRRP