Protein Info for GFF2946 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: RNA polymerase sigma-54 factor RpoN

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 50 100 150 200 250 300 350 400 450 477 PF00309: Sigma54_AID" amino acids 5 to 48 (44 residues), 60.1 bits, see alignment 2.3e-20 TIGR02395: RNA polymerase sigma-54 factor" amino acids 9 to 474 (466 residues), 548.8 bits, see alignment E=5e-169 PF04963: Sigma54_CBD" amino acids 116 to 303 (188 residues), 216.6 bits, see alignment E=3.6e-68 PF04552: Sigma54_DBD" amino acids 317 to 475 (159 residues), 236.1 bits, see alignment E=2.5e-74

Best Hits

Swiss-Prot: 100% identical to RP54_SALTY: RNA polymerase sigma-54 factor (rpoN) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K03092, RNA polymerase sigma-54 factor (inferred from 100% identity to sty:STY3499)

MetaCyc: 94% identical to RNA polymerase sigma factor RpoN (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"RNA polymerase sigma-54 factor RpoN" in subsystem Flagellar motility or Flagellum or 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)

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 (477 amino acids)

>GFF2946 RNA polymerase sigma-54 factor RpoN (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ
PQDNDPLDTADALEQKEMPEELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSL
QDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDEIRESMGDVEVDLDEVEAVLK
RIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQIN
QHYAAMCNSARNDADSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE
YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI
RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV