Protein Info for LRK54_RS16940 in Rhodanobacter denitrificans FW104-10B01

Annotation: RNA polymerase sigma factor RpoE

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 50 100 150 204 TIGR02939: RNA polymerase sigma factor RpoE" amino acids 10 to 197 (188 residues), 322 bits, see alignment E=1.5e-100 PF07638: Sigma70_ECF" amino acids 17 to 193 (177 residues), 34.8 bits, see alignment E=3.2e-12 TIGR02937: RNA polymerase sigma factor, sigma-70 family" amino acids 28 to 193 (166 residues), 106.4 bits, see alignment E=1.2e-34 PF04542: Sigma70_r2" amino acids 32 to 95 (64 residues), 69.6 bits, see alignment E=3.2e-23 PF08281: Sigma70_r4_2" amino acids 142 to 188 (47 residues), 66.1 bits, see alignment 3.5e-22 PF04545: Sigma70_r4" amino acids 144 to 188 (45 residues), 38.8 bits, see alignment 1.1e-13

Best Hits

Swiss-Prot: 65% identical to RPSH_PSEAE: RNA polymerase sigma-H factor (algU) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03088, RNA polymerase sigma-70 factor, ECF subfamily (inferred from 69% identity to xcc:XCC1267)

MetaCyc: 62% identical to RNA polymerase sigma factor RpoE (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"RNA polymerase sigma factor RpoE" in subsystem Transcription initiation, bacterial sigma factors

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

Find the best match in UniProt

Protein Sequence (204 amino acids)

>LRK54_RS16940 RNA polymerase sigma factor RpoE (Rhodanobacter denitrificans FW104-10B01)
MTTDTARTGENELDRLLVERVQQGDKRAFDLLVRKYQHKVIGLVSRYVRSHAECEDIAQE
SFIRAWRAIGSFRGDSAFYTWLYKIAVNTAKNHLVAMGRRPPAGDIDADDAEFMAGAERM
HDSATPERELMRQEIEQSVFSTVQALPEELRTAITLREVDGLSYDEIAEAMGCPIGTVRS
RIFRAREAIDEKLRPLLSDREDQT