Protein Info for SO1813 in Shewanella oneidensis MR-1

Annotation: DNA-binding protein, putative (NCBI ptt file)

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 50 121 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details PF12836: HHH_3" amino acids 58 to 119 (62 residues), 77.8 bits, see alignment E=8e-26 TIGR00426: competence protein ComEA helix-hairpin-helix repeat region" amino acids 58 to 120 (63 residues), 80.9 bits, see alignment E=2.8e-27 PF03934: T2SSK" amino acids 61 to 109 (49 residues), 32.8 bits, see alignment E=1.1e-11 PF00633: HHH" amino acids 62 to 88 (27 residues), 27.2 bits, see alignment 3.8e-10

Best Hits

Swiss-Prot: 34% identical to YBAV_ECOLI: Uncharacterized protein YbaV (ybaV) from Escherichia coli (strain K12)

KEGG orthology group: K02237, competence protein ComEA (inferred from 100% identity to son:SO_1813)

Predicted SEED Role

"FIG01200701: possible membrane protein"

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 Q8EG01 at UniProt or InterPro

Protein Sequence (121 amino acids)

>SO1813 DNA-binding protein, putative (NCBI ptt file) (Shewanella oneidensis MR-1)
MKVKSSLPAVVCAVVFSALLTIPAIAADPVKEASKVQSQAKTEAKNMANDAKQALPDAAQ
VNINTASAEQLQLLKGIGVAKAQAIIDYRTQNGQFKAIDELANVSGIGAKLIEQNRHMIK
L