Protein Info for Shew_1645 in Shewanella loihica PV-4

Annotation: sigma-54 dependent trancsriptional regulator (RefSeq)

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 50 100 150 200 250 300 350 400 456 PF20161: VpsR" amino acids 5 to 127 (123 residues), 48.7 bits, see alignment E=1.5e-16 PF00158: Sigma54_activat" amino acids 153 to 319 (167 residues), 226 bits, see alignment E=5.7e-71 PF14532: Sigma54_activ_2" amino acids 153 to 323 (171 residues), 77.4 bits, see alignment E=3.2e-25 PF02954: HTH_8" amino acids 413 to 451 (39 residues), 38.1 bits, see alignment 2.5e-13

Best Hits

KEGG orthology group: None (inferred from 100% identity to slo:Shew_1645)

Predicted SEED Role

"Sigma-54 dependent transcriptional regulator"

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

See A3QDG4 at UniProt or InterPro

Protein Sequence (456 amino acids)

>Shew_1645 sigma-54 dependent trancsriptional regulator (RefSeq) (Shewanella loihica PV-4)
MSNRKRNLTHKERNILVLNLTDEACLTDEHTDTTQWHFNHAGTLSAAYKALESAPCQIAI
AIIDLPHQQVVLRAIELLSARQPRLLWLAISLDSPKNLGNLCFCFTDYFLDFHHLPIDWQ
RLDHTLGHLCGMAQLNEQWSKEKTTHQPRSFFFGESSVMQTLRDNLYKIAKSDETVLIGG
ETGTGKGLCANLIHSLSSRKNGPFITVNCGALPPTLIHSELFGHEKGAFTGADRQYIGRI
ERANKGTLFLDEIGDLSLELQINLLQFLEEHYIERIGGQKSTEVDCRIIFATHVNLENAV
EEGKFREDLFYRINIIQIELPSLREHKQDIPLLAQDYLTKLAPPNRQFQFHQDALHAMTN
YQWPGNVRELKNRIQRAIIMTESDIITEADLGIKFACSANDDPDVVDLAQHRTEIDTELL
LAAIKRNNHNISAAARELNISRTTFYRLIKKCKITL