Protein Info for BPHYT_RS02905 in Burkholderia phytofirmans PsJN

Annotation: RNA polymerase subunit sigma-54

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 50 100 150 200 250 300 350 400 450 503 PF00309: Sigma54_AID" amino acids 4 to 48 (45 residues), 52.2 bits, see alignment 6.7e-18 TIGR02395: RNA polymerase sigma-54 factor" amino acids 9 to 501 (493 residues), 470.4 bits, see alignment E=3.2e-145 PF04963: Sigma54_CBD" amino acids 139 to 330 (192 residues), 197.2 bits, see alignment E=3.3e-62 PF04552: Sigma54_DBD" amino acids 346 to 501 (156 residues), 219.9 bits, see alignment E=2.3e-69

Best Hits

Swiss-Prot: 65% identical to RP54_CUPNH: RNA polymerase sigma-54 factor (rpoN) from Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)

KEGG orthology group: K03092, RNA polymerase sigma-54 factor (inferred from 100% identity to bpy:Bphyt_0596)

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)

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 B2SXH6 at UniProt or InterPro

Protein Sequence (503 amino acids)

>BPHYT_RS02905 RNA polymerase subunit sigma-54 (Burkholderia phytofirmans PsJN)
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAISQNPLLENEDDWIASPLRV
AADGSLIAQAPNSSAPPDQMGGNTSSSSSSERAENGEPQGVDEYNGLAGDGNGDASQWNL
DDYGRSGNASDDDDLPPLQIHESSTSLRDHLMAQLRVTQAGQRDRALITFLIESLDDDGY
LAATLEEVLADLPEELEVDLDEMNAALALLHSFDPAGVGARSASECLKLQLLRLDASPTR
TLALDIVAHHLELLAARDFTRLRKHLKANDDDLRDAHILIRSLEPFPGAAYGKAEADYVV
PDIMVRKTAQGWQAELNPEVVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNI
QQRFETILRVAQAIVERQKSFFVHGEIAMRPLVLREIADTLGLHESTVSRVTTGKYMLTP
FGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFVV
ARRTVAKYREALKIPAVNLRKSL