Protein Info for Shew_2706 in Shewanella loihica PV-4

Annotation: Na(+)-translocating NADH-quinone reductase subunit D (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 50 100 150 207 transmembrane" amino acids 12 to 35 (24 residues), see Phobius details amino acids 41 to 61 (21 residues), see Phobius details amino acids 73 to 92 (20 residues), see Phobius details amino acids 102 to 119 (18 residues), see Phobius details amino acids 132 to 153 (22 residues), see Phobius details amino acids 184 to 202 (19 residues), see Phobius details TIGR01939: NADH:ubiquinone oxidoreductase, Na(+)-translocating, D subunit" amino acids 6 to 205 (200 residues), 277.8 bits, see alignment E=3.2e-87 PF02508: Rnf-Nqr" amino acids 10 to 196 (187 residues), 202 bits, see alignment E=4e-64

Best Hits

Swiss-Prot: 67% identical to NQRD_SHEHH: Na(+)-translocating NADH-quinone reductase subunit D (nqrD) from Shewanella halifaxensis (strain HAW-EB4)

KEGG orthology group: K00349, Na+-transporting NADH:ubiquinone oxidoreductase subunit D [EC: 1.6.5.-] (inferred from 100% identity to slo:Shew_2706)

MetaCyc: 59% identical to Na(+)-translocating NADH-quinone reductase subunit D (Vibrio cholerae)
TRANS-RXN-214 [EC: 7.2.1.1]

Predicted SEED Role

"Na(+)-translocating NADH-quinone reductase subunit D (EC 1.6.5.-)" in subsystem Na(+)-translocating NADH-quinone oxidoreductase and rnf-like group of electron transport complexes (EC 1.6.5.-)

Isozymes

Compare fitness of predicted isozymes for: 1.6.5.-

Use Curated BLAST to search for 1.6.5.- or 7.2.1.1

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 A3QGH4 at UniProt or InterPro

Protein Sequence (207 amino acids)

>Shew_2706 Na(+)-translocating NADH-quinone reductase subunit D (RefSeq) (Shewanella loihica PV-4)
MSKSMTATRDILTGPIFANNPVAMQVLGVCSALAVSNSMQTALVMTLAVTFVLVFSNLII
SSIRNFIPNSVRIIAQMTVIASLVIIVDMVLQDVAYELSRQLSVFVGLIITNCIIMGRAE
AFAMKMPPHLAVVDAMGNAMGYGVILLSVAFVRELLGAGTLFGHEILKTVENDGWYLANE
MFKLPPSAFFLIGLLIWAINVIQRKRG