Protein Info for MIT1002_03485 in Alteromonas macleodii MIT1002

Annotation: Na(+)-translocating NADH-quinone reductase subunit D

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 50 100 150 210 transmembrane" amino acids 16 to 35 (20 residues), see Phobius details amino acids 41 to 62 (22 residues), see Phobius details amino acids 71 to 90 (20 residues), see Phobius details amino acids 101 to 119 (19 residues), see Phobius details amino acids 139 to 163 (25 residues), see Phobius details amino acids 179 to 198 (20 residues), see Phobius details TIGR01939: NADH:ubiquinone oxidoreductase, Na(+)-translocating, D subunit" amino acids 4 to 207 (204 residues), 329 bits, see alignment E=6.6e-103 PF02508: Rnf-Nqr" amino acids 8 to 195 (188 residues), 197.1 bits, see alignment E=1.2e-62

Best Hits

Swiss-Prot: 92% identical to NQRD_PSEA6: Na(+)-translocating NADH-quinone reductase subunit D (nqrD) from Pseudoalteromonas atlantica (strain T6c / ATCC BAA-1087)

KEGG orthology group: K00349, Na+-transporting NADH:ubiquinone oxidoreductase subunit D [EC: 1.6.5.-] (inferred from 97% identity to alt:ambt_00460)

MetaCyc: 72% 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)

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

Find the best match in UniProt

Protein Sequence (210 amino acids)

>MIT1002_03485 Na(+)-translocating NADH-quinone reductase subunit D (Alteromonas macleodii MIT1002)
MADTKEMKKALFGPILDNNPIALQVLGICSALAITTKLETALVMSLALTSVVAFSNLFIS
LIRNQIPSSVRIIIQMTIIASLVIVVDQILKAYSYEISKQLSVFVGLIITNCIVMGRAEA
YAMKSPPLMSFLDGIGNGLGYSFILIVIGTIKELFGFGTILGFEILPLVQNGGWYQGNGL
LILPFSSFFLIGGMIWFIRTIRPEQVEPKE