Protein Info for GFF2854 in Variovorax sp. SCN45

Annotation: D-malate dehydrogenase [decarboxylating] (EC 1.1.1.83)

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

• TIGR02089: tartrate dehydrogenase
  • amino acids 1 to 361 (361 residues), 543.2 bits, E=1.2e-167
• PF00180: Iso_dh
  • amino acids 6 to 357 (352 residues), 287.8 bits, E=7e-90

Best Hits

Swiss-Prot: 65% identical to DMLA_ECOLI: D-malate dehydrogenase [decarboxylating] (dmlA) from Escherichia coli (strain K12)

KEGG orthology group: K07246, tartrate dehydrogenase/decarboxylase / D-malate dehydrogenase [EC: 1.1.1.83 1.1.1.93 4.1.1.73] (inferred from 95% identity to vap:Vapar_1788)

MetaCyc: 71% identical to L-tartrate dehydrogenase/D-malate dehydrogenase (decarboxylating)/meso-tartrate decarboxylase monomer (Cereibacter sphaeroides)
4.1.1.M27 [EC: 4.1.1.M27]; Tartrate dehydrogenase. [EC: 4.1.1.M27, 1.1.1.93, 4.1.1.73]; D-malate dehydrogenase (decarboxylating). [EC: 4.1.1.M27, 1.1.1.93, 4.1.1.73, 1.1.1.83]

Predicted SEED Role

No annotation

MetaCyc Pathways

• protocatechuate degradation I (meta-cleavage pathway) (7/8 steps found)
• superpathway of vanillin and vanillate degradation (8/10 steps found)
• methylgallate degradation (5/6 steps found)
• D-malate degradation (1/1 steps found)
• gentisate degradation II (2/4 steps found)
• syringate degradation (7/12 steps found)

KEGG Metabolic Maps

• Butanoate metabolism
• Glyoxylate and dicarboxylate metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.83, 1.1.1.93, 4.1.1.73

Use Curated BLAST to search for 1.1.1.83 or 1.1.1.93 or 4.1.1.73 or 4.1.1.M27

Protein Sequence (361 amino acids)

>GFF2854 D-malate dehydrogenase [decarboxylating] (EC 1.1.1.83) (Variovorax sp. SCN45)
MSTQRIAVIAGDGIGKETMPEGLRVLEAAATRFGIDLKFDHFDFSSWDYYEKHGQMLPDN
WKDQIGGHDAIFFGAVGWPEKIPDHVSLWGSLLMFRREFDQYINLRPARLMPGIIAPVVR
RDGTPREPGEIDMYIVRENTEGEYSSIGGRMYQGTPREIVVQETVMSRVGVDRVLKFAFE
LAQSRPKKHLTSATKSNGISITMPYWDERVAEMGKSYPGITLDKFHIDILTAHFVQRPDF
FDVVVASNLFGDILSDLGPACTGTIGIAPSANLNPERTTPSLFEPVHGSAPDIAGKGIAN
PIGQIWCGAMMLEFLGHKQAHDAILSTIEKVLAPQSGAPRTPDIGGKASTSDLGKAIAAA
L