Protein Info for Shew_1408 in Shewanella loihica PV-4
Annotation: thiamine pyrophosphate binding domain-containing protein (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
Best Hits
KEGG orthology group: K02551, 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase [EC: 2.2.1.9] (inferred from 100% identity to slo:Shew_1408)Predicted SEED Role
"2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase (EC 2.2.1.9)" in subsystem Menaquinone and Phylloquinone Biosynthesis (EC 2.2.1.9)
MetaCyc Pathways
- superpathway of chorismate metabolism (51/59 steps found)
- superpathway of menaquinol-8 biosynthesis I (10/10 steps found)
- superpathway of demethylmenaquinol-8 biosynthesis I (9/9 steps found)
- 2-carboxy-1,4-naphthoquinol biosynthesis (7/7 steps found)
- superpathway of menaquinol-10 biosynthesis (9/10 steps found)
- superpathway of menaquinol-11 biosynthesis (9/10 steps found)
- superpathway of menaquinol-12 biosynthesis (9/10 steps found)
- superpathway of menaquinol-13 biosynthesis (9/10 steps found)
- superpathway of menaquinol-6 biosynthesis (9/10 steps found)
- superpathway of menaquinol-7 biosynthesis (9/10 steps found)
- superpathway of menaquinol-9 biosynthesis (9/10 steps found)
- superpathway of demethylmenaquinol-6 biosynthesis I (8/9 steps found)
- superpathway of demethylmenaquinol-9 biosynthesis (8/9 steps found)
- superpathway of phylloquinol biosynthesis (7/15 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 2.2.1.9
Use Curated BLAST to search for 2.2.1.9
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 A3QCS9 at UniProt or InterPro
Protein Sequence (580 amino acids)
>Shew_1408 thiamine pyrophosphate binding domain-containing protein (RefSeq) (Shewanella loihica PV-4) MMTYTREKNTQLLISLLKQHGVRYVVASPGNTNTAFIGSIQGDQYFTIFSAVDERSAAYM ACGIAAETGETVVISCTGATASRNYLPGMTEAYYRKLPVIAVTSSQPIANIGHLSAQLLD RTVIPKDVAKLSVNLPIVKDNDDVWECEIKINQAILESCRHGGGPVHINLPTTFTKPFDV NKIQHARLINRVTIDDQFPLLEDKKVAIFIGSHKKMSKDVESLIDRFCEENNSVVFCDHT SAYKGKYRVHYSLVSGQEYNSIITERPDILIHFGEVTGDYYNLKIAAKEQVWRVSDDGEI RDSFRKLRYVFEMSLNSFFLNYVGHGTEINISYYETCKAKLDQVRNNIPEIPFSNIWAAS QVSSKLPDHSVIHFGILNSLRSWNFFDIPDTVTSDSNVGGFGIDGNMSSLIGASLTNPEK LYFLVNGDLAFFYDLNVLGNRHVGANIRILLVNNGKGTEFRQYNHHANYFGEDTDKYIAA AGHFGNKSKSLVKCFVENLGFEYICASDKQEFLFQIDRFVTKNVQDRPMVFEIFTNSNDE SCALEKMLSIDIDKKIVRKNKVKSVVGTSVISSVKKILGS