Protein Info for HMPREF1181_RS06655 in Bacteroides stercoris CC31F

Annotation: malate dehydrogenase

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

• TIGR01763: malate dehydrogenase, NAD-dependent
  • amino acids 2 to 304 (303 residues), 363.6 bits, E=3.8e-113
• PF00056: Ldh_1_N
  • amino acids 3 to 143 (141 residues), 142.7 bits, E=8.3e-46
• PF02866: Ldh_1_C
  • amino acids 148 to 302 (155 residues), 93.7 bits, E=1.4e-30

Best Hits

Swiss-Prot: 96% identical to MDH_BACFN: Malate dehydrogenase (mdh) from Bacteroides fragilis (strain ATCC 25285 / DSM 2151 / JCM 11019 / NCTC 9343)

KEGG orthology group: K00024, malate dehydrogenase [EC: 1.1.1.37] (inferred from 98% identity to bhl:Bache_0106)

MetaCyc: 41% identical to malate dehydrogenase subunit (Methylorubrum extorquens AM1)
Malate dehydrogenase. [EC: 1.1.1.37, 1.1.1.38]

Predicted SEED Role

"Malate dehydrogenase (EC 1.1.1.37)" in subsystem Serine-glyoxylate cycle or TCA Cycle (EC 1.1.1.37)

MetaCyc Pathways

• gluconeogenesis I (11/13 steps found)
• gluconeogenesis III (10/12 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (10/13 steps found)
• malate/L-aspartate shuttle pathway (2/2 steps found)
• TCA cycle V (2-oxoglutarate synthase) (7/9 steps found)
• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (19/26 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (16/22 steps found)
• reductive TCA cycle I (8/11 steps found)
• incomplete reductive TCA cycle (5/7 steps found)
• pyruvate fermentation to propanoate I (5/7 steps found)
• TCA cycle I (prokaryotic) (7/10 steps found)
• TCA cycle III (animals) (7/10 steps found)
• TCA cycle VIII (Chlamydia) (4/6 steps found)
• glyoxylate cycle (4/6 steps found)
• TCA cycle II (plants and fungi) (6/9 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (6/9 steps found)
• mixed acid fermentation (11/16 steps found)
• anaerobic energy metabolism (invertebrates, cytosol) (4/7 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (6/10 steps found)
• reductive TCA cycle II (7/12 steps found)
• superpathway of glyoxylate bypass and TCA (7/12 steps found)
• chitin deacetylation (1/4 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
• methylgallate degradation (2/6 steps found)
• protocatechuate degradation I (meta-cleavage pathway) (3/8 steps found)
• C4 photosynthetic carbon assimilation cycle, NAD-ME type (5/11 steps found)
• L-glutamate degradation VIII (to propanoate) (5/11 steps found)
• formaldehyde assimilation I (serine pathway) (6/13 steps found)
• methylaspartate cycle (10/19 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (6/14 steps found)
• superpathway of vanillin and vanillate degradation (3/10 steps found)
• syringate degradation (3/12 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (19/56 steps found)

KEGG Metabolic Maps

• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of phenylpropanoids
• Biosynthesis of plant hormones
• Biosynthesis of terpenoids and steroids
• Carbon fixation in photosynthetic organisms
• Citrate cycle (TCA cycle)
• Glyoxylate and dicarboxylate metabolism
• Pyruvate metabolism
• Reductive carboxylate cycle (CO2 fixation)

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.37

Use Curated BLAST to search for 1.1.1.37 or 1.1.1.38

Protein Sequence (313 amino acids)

>HMPREF1181_RS06655 malate dehydrogenase (Bacteroides stercoris CC31F)
MSKVTVVGAGNVGATCANVLAFNEVADEVVMLDVKEGVSEGKAMDMMQTAQLLGFDTTVV
GCTNDYEKTANSDVVVITSGIPRKPGMTREELIGVNAGIVKSVAQNILKYSPNAILVVIS
NPMDTMTYLSLKSLGIPKNRIIGMGGALDSSRFKYFLSQALGCNANEVEGMVIGGHGDTT
MIPLARLATYKGQPVSTLLSAEKLDEVVASTMVGGATLTKLLGTSAWYAPGAAGAYVVES
IIHNQKKMIPCSVYLEGEYGESDICIGVPVILGKNGIEKIVELELNADEKAKFAASAAAV
HKTNAALKEVGAL