Protein Info for GFF5640 in Variovorax sp. SCN45

Annotation: Putative formate dehydrogenase oxidoreductase protein

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

• TIGR01701: oxidoreductase alpha (molybdopterin) subunit
  • amino acids 13 to 764 (752 residues), 965.5 bits, E=8.7e-295
• PF00384: Molybdopterin
  • amino acids 109 to 491 (383 residues), 84.6 bits, E=7.3e-28
• PF01568: Molydop_binding
  • amino acids 653 to 759 (107 residues), 37.8 bits, E=1.7e-13

Best Hits

Swiss-Prot: 53% identical to YDEP_ECOLI: Protein YdeP (ydeP) from Escherichia coli (strain K12)

KEGG orthology group: K00123, formate dehydrogenase, alpha subunit [EC: 1.2.1.2] (inferred from 91% identity to vpe:Varpa_4734)

Predicted SEED Role

"Putative formate dehydrogenase oxidoreductase protein" in subsystem Formate hydrogenase

MetaCyc Pathways

• formate oxidation to CO₂ (1/1 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 1.2.1.2

Protein Sequence (782 amino acids)

>GFF5640 Putative formate dehydrogenase oxidoreductase protein (Variovorax sp. SCN45)
MSEQKIEFYKGPAGGWGALRSVTNALLRQDIPIKGAKTLLSANQPDGFDCPGCAWPDRNH
ASTFEFCENGVKAVAAEATARRAGPELFAKHTVAELAQQSDFWLEDQGRLTHPMAYDAAS
DKYVPIEWDDAFARIAQHLNALPDPNQAIFYTSGRASNEAAFLYQLFVREYGTNNFPDCS
NMCHEPSGSGMRPQLGVGKGTVTLDDFEKADAIFIFGQNPGTNHPRMLGELRAASKRGAR
IVSFNPLRERGLERFADPQDKLEMATMGSTPISTHYFQLRVGGDFSVIKGMMKHVIERED
AAVARGEPSVLDHDFIATHTIGFESLAADLRAESWDILVREAGLSEAQIRAAADVYLGAR
RVIACWGMGITQHQHSVATIQMIGNWLMLCGHMGREGAGACPVRGHSNVQGDRTMGIWEK
PPAALLDRLQKVFDFEPPRQNGVDTVEAIRLMLDGKGKVFFALGGNFAAATPDTYQTWKG
LQQCDLTVHVTTKLNRSHVIHGREAIILPCLGRTEIDMQANGPQGVTVEDSMSMVHISMG
INPPASEHLLSEPAIVARLAAATIGARSKTPWLWLVEDYARIRDKIEAVFDDFKDFNTRV
AHPGGFRLRNTASERVWNTASKKAVFFTHAVPLDTHSHRARARFAKKGDTIVFTLLTTRS
HDQYNTTIYGMDDRYRGVFGQRRVVFINKEDIRKLGMKDGDWVDIQTVWSDGQERRADRF
KLVAYDIPRGNLAAYYPETNPLVPLSSVAENAGTPTSKSIPVVLSLHAAPAPEPADADTV
AA