Protein Info for GFF5656 in Variovorax sp. SCN45

Annotation: Formate dehydrogenase O gamma subunit (EC 1.2.1.2)

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 6 to 204 (199 residues), 174.5 bits, E=1.4e-55
• PF01292: Ni_hydr_CYTB
  • amino acids 8 to 185 (178 residues), 91.1 bits, E=3.8e-30

Best Hits

Swiss-Prot: 43% identical to FDNI_ECOLI: Formate dehydrogenase, nitrate-inducible, cytochrome b556(Fdn) subunit (fdnI) from Escherichia coli (strain K12)

KEGG orthology group: K00127, formate dehydrogenase, gamma subunit [EC: 1.2.1.2] (inferred from 54% identity to smt:Smal_3263)

MetaCyc: 43% identical to formate dehydrogenase N 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

• formate to dimethyl sulfoxide electron transfer (2/2 steps found)
• formate oxidation to CO₂ (1/1 steps found)
• formate to trimethylamine N-oxide electron transfer (1/2 steps found)
• nitrate reduction III (dissimilatory) (1/2 steps found)
• formate to nitrite electron transfer (1/3 steps found)
• purine nucleobases degradation II (anaerobic) (16/24 steps found)
• oxalate degradation VI (1/4 steps found)
• oxalate degradation III (1/5 steps found)
• superpathway of C1 compounds oxidation to CO₂ (4/12 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 (207 amino acids)

>GFF5656 Formate dehydrogenase O gamma subunit (EC 1.2.1.2) (Variovorax sp. SCN45)
MTRYYLRRYRDATRMNHWFVAIMFFAAALSGLSFFHPSLFFLTNLFGGGPWTRILHPFLG
VLMVLGFVFLFFTMWRENILDKVDREWIANAPKMLKGDKSSMPPVGKYNAGQKLVFWAFG
ISLLLLLVTGFMFWSPWFVGFFPILLRRIAVVVHAVSAVVLILSVITHIYAAIWVKGTLR
AMTRGTVTEGWAKLNHPLWHRKMTRGE