Protein Info for GFF776 in Sphingobium sp. HT1-2

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 50 100 150 200 250 300 350 400 450 505 PF00309: Sigma54_AID" amino acids 6 to 50 (45 residues), 60.9 bits, see alignment 1.3e-20 TIGR02395: RNA polymerase sigma-54 factor" amino acids 11 to 495 (485 residues), 404.1 bits, see alignment E=4.3e-125 PF04963: Sigma54_CBD" amino acids 137 to 322 (186 residues), 172.4 bits, see alignment E=1.3e-54 PF04552: Sigma54_DBD" amino acids 337 to 496 (160 residues), 221.2 bits, see alignment E=9.1e-70

Best Hits

KEGG orthology group: K03092, RNA polymerase sigma-54 factor (inferred from 84% identity to sjp:SJA_C1-01980)

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 (505 amino acids)

>GFF776 RNA polymerase sigma-54 factor RpoN (Sphingobium sp. HT1-2)
MALGPRLDIRQSQSLVMTPQLQQAIKLLALSNLEIEAFVAGELEKNPLLEQGAADDGGRE
GSGVDREVEAPTLAAETGASDDLIAQGLGGADSPLDVDHGAETFIDDGPADRMGAGSGSG
SLDMLGGGSGSGEAVDFDSFANAAPSLQEHLMDQARSTLSGMDLLIATQLIGQISEAGYL
EANLLQTAHGLGVPLFTVEAVLEVIHSFDPTGVGARSLAECLALQAKEANRYDPCIQRLL
ANLDLLAKGALPQLRRICGVDEEDLADMIRELRGYDPKPGLRFASDSATPVTPDLFVSRT
REGWGIEVNSATLPRVLVNRTYYVELAGGPQDKASKAWLADCLASANWLVKALDQRQKTI
IKVASEIVRQQEDFFRNGVAYLKPLTLRAVADAIEMHESTVSRVTSNKYLSCPRGLYELK
YFFTSGVAAADGDGAVSAEAVKSHIKALIGAEEAHAILSDDTLVDLLRAKGMDIARRTVA
KYRESMGIGSSVQRRRQKALKGKAA