Protein Info for HSERO_RS16195 in Herbaspirillum seropedicae SmR1

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 50 100 150 209 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 49 to 201 (153 residues), 72.1 bits, see alignment E=2.1e-24 PF04542: Sigma70_r2" amino acids 56 to 121 (66 residues), 45 bits, see alignment E=1.5e-15 PF08281: Sigma70_r4_2" amino acids 147 to 199 (53 residues), 51.3 bits, see alignment E=1.5e-17 PF04545: Sigma70_r4" amino acids 152 to 199 (48 residues), 30.7 bits, see alignment 3.5e-11

Best Hits

Swiss-Prot: 62% identical to SIGF_AZOOP: ECF RNA polymerase sigma factor SigF (sigF) from Azospira oryzae (strain ATCC BAA-33 / DSM 13638 / PS)

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 100% identity to hse:Hsero_3236)

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 D8J1E8 at UniProt or InterPro

Protein Sequence (209 amino acids)

>HSERO_RS16195 RNA polymerase sigma factor (Herbaspirillum seropedicae SmR1)
MTESPYLLATGGPPLPDDLAGLPGKPAHPTEERLRTLLLAGLDGDAVAYRNFLSELSGRL
RAFLRKRLVHLQDDVEDVVQETLLAIHNARHTYRPDQPLTAWVHAIARYKLMDFLRARSR
RDAFLDPLEEEHDLLAICDDEPAQARRDVGALLEELPDKQRLPIVHVKLEGLSVAETAQL
TGMSESAVKVGIHRGLKALALKIREKLQA