Protein Info for Shew_1445 in Shewanella loihica PV-4

Updated annotation (from data): dicarboxylate TRAP transporter (succinate, fumarate, L-malate, and alpha-ketoglutarate), small permease component
Rationale: Important for utilizing succinate, fumarate, and L-malate, as expected, and also for utilizing a-ketoglutarate
Original annotation: tripartite ATP-independent periplasmic transporter DctQ (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 50 100 150 212 transmembrane" amino acids 12 to 34 (23 residues), see Phobius details amino acids 41 to 62 (22 residues), see Phobius details amino acids 84 to 105 (22 residues), see Phobius details amino acids 152 to 174 (23 residues), see Phobius details PF04290: DctQ" amino acids 21 to 174 (154 residues), 74.9 bits, see alignment E=2.8e-25

Best Hits

KEGG orthology group: K11689, C4-dicarboxylate transporter, DctQ subunit (inferred from 100% identity to slo:Shew_1445)

Predicted SEED Role

No annotation

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 A3QCW4 at UniProt or InterPro

Protein Sequence (212 amino acids)

>Shew_1445 dicarboxylate TRAP transporter (succinate, fumarate, L-malate, and alpha-ketoglutarate), small permease component (Shewanella loihica PV-4)
MMSRFFSHIEEVVLNALITAMTLLVFVEVIARFFFNTGFLWIQELTLTICGWFVLFGMSY
GVKVGAHIGVDAFVKKLPAQGRKYTAILAVAICLIYCGMFLVGSWDYLAKMYQIGVPMED
IDLPHFLIGGLDGDFAWEYLRIDVEEPAVPLWTSQSILLIGFILLTWRFLQLALAIITNK
TDGFAFADEAKESMHLIDQEAQADDKQPGDKK