Protein Info for GFF4694 in Xanthobacter sp. DMC5

Annotation: Formate dehydrogenase, cytochrome b556(fdo) subunit

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

• TIGR01583: formate dehydrogenase, gamma subunit
  • amino acids 20 to 220 (201 residues), 187.1 bits, E=2e-59
• PF01292: Ni_hydr_CYTB
  • amino acids 23 to 200 (178 residues), 101.5 bits, E=2.5e-33

Best Hits

Swiss-Prot: 47% identical to FDOI_ECOL6: Formate dehydrogenase, cytochrome b556(fdo) subunit (fdoI) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K00127, formate dehydrogenase, gamma subunit [EC: 1.2.1.2] (inferred from 85% identity to xau:Xaut_0660)

MetaCyc: 47% identical to formate dehydrogenase O subunit gamma (Escherichia coli K-12 substr. MG1655)
FORMATEDEHYDROG-RXN [EC: 1.17.5.3]

Predicted SEED Role

"Formate dehydrogenase O gamma subunit (EC 1.2.1.2)" in subsystem Formate dehydrogenase or Formate hydrogenase (EC 1.2.1.2)

MetaCyc Pathways

• nitrate reduction III (dissimilatory) (2/2 steps found)
• formate oxidation to CO₂ (1/1 steps found)
• formate to dimethyl sulfoxide electron transfer (1/2 steps found)
• formate to trimethylamine N-oxide electron transfer (1/2 steps found)
• superpathway of C1 compounds oxidation to CO₂ (8/12 steps found)
• oxalate degradation VI (2/4 steps found)
• formate to nitrite electron transfer (1/3 steps found)
• purine nucleobases degradation II (anaerobic) (16/24 steps found)
• oxalate degradation III (2/5 steps found)
• purine nucleobases degradation I (anaerobic) (6/15 steps found)

KEGG Metabolic Maps

• Glyoxylate and dicarboxylate metabolism
• Methane metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.2.1.2

Use Curated BLAST to search for 1.17.5.3 or 1.2.1.2

Protein Sequence (232 amino acids)

>GFF4694 Formate dehydrogenase, cytochrome b556(fdo) subunit (Xanthobacter sp. DMC5)
MSAPYDLETGDAVHPGRPVQVDRYTVGARINHWVTAISLILLAISGLALFHPSLYFLTGL
FGGGQMTRTIHPWIGVVLFFSFAGMFLRFWKANLWKSEDGTWMRRIRDVIAGHEEKLPEL
GKYNAGQKMVFWGMSLLIMVLITSGVVIWQAYFASYTTIEQQRIALLVHALAAVAIICVW
IVHVYAAIWVKGTISAMTRGQVTGGWAWRHHRKWFRELVSSRKSGTRGTPAE