Protein Info for CA265_RS03080 in Pedobacter sp. GW460-11-11-14-LB5

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 1 to 305 (305 residues), 355.8 bits, E=9.2e-111
• PF00056: Ldh_1_N
  • amino acids 1 to 142 (142 residues), 146.7 bits, E=4.9e-47
• PF02866: Ldh_1_C
  • amino acids 146 to 301 (156 residues), 78.6 bits, E=6.2e-26

Best Hits

Swiss-Prot: 72% identical to MDH_FLAFR: Malate dehydrogenase (mdh) from Flavobacterium frigidimaris

KEGG orthology group: K00024, malate dehydrogenase [EC: 1.1.1.37] (inferred from 79% identity to sli:Slin_4496)

MetaCyc: 42% 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 (12/13 steps found)
• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (21/26 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (18/22 steps found)
• TCA cycle I (prokaryotic) (9/10 steps found)
• TCA cycle III (animals) (8/10 steps found)
• TCA cycle VIII (Chlamydia) (5/6 steps found)
• malate/L-aspartate shuttle pathway (2/2 steps found)
• TCA cycle II (plants and fungi) (7/9 steps found)
• TCA cycle V (2-oxoglutarate synthase) (7/9 steps found)
• mixed acid fermentation (12/16 steps found)
• gluconeogenesis III (9/12 steps found)
• superpathway of glyoxylate bypass and TCA (9/12 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (10/14 steps found)
• glyoxylate cycle (4/6 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (6/9 steps found)
• reductive TCA cycle I (7/11 steps found)
• anaerobic energy metabolism (invertebrates, cytosol) (4/7 steps found)
• incomplete reductive TCA cycle (4/7 steps found)
• pyruvate fermentation to propanoate I (4/7 steps found)
• L-carnitine degradation II (1/3 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (6/10 steps found)
• chitin deacetylation (1/4 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
• methylgallate degradation (2/6 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (7/13 steps found)
• formaldehyde assimilation I (serine pathway) (7/13 steps found)
• methylaspartate cycle (11/19 steps found)
• protocatechuate degradation I (meta-cleavage pathway) (3/8 steps found)
• C4 photosynthetic carbon assimilation cycle, NAD-ME type (5/11 steps found)
• reductive TCA cycle II (5/12 steps found)
• L-glutamate degradation VIII (to propanoate) (4/11 steps found)
• superpathway of vanillin and vanillate degradation (3/10 steps found)
• syringate degradation (3/12 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (20/56 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

Sequence Analysis Tools

See A0A1X9Z187 at UniProt or InterPro

Protein Sequence (312 amino acids)

>CA265_RS03080 malate dehydrogenase (Pedobacter sp. GW460-11-11-14-LB5)
MKVTVVGAGAVGATCADNIARKELANELVLLDIKEGFAEGKAIDMMQTATLLGFDTKITG
VTGDYSKTAGSDVVVITSGLPRKPGMTREELIGINAGIVKGVAENILKFSPEAIFIVISN
PMDTMTYLALKSLGLPKNRIIGMGGTLDSSRFKFYLSQALNCNPNDLQGFVIGGHGDTTM
IPLTRLATYQSLPVSNLLDKATLDKVAADTMVGGATLTGLIGTSAWYAPGAAGAALVEAI
LRDEKKLFTCCVSLEGEYGQEDICLGVPVIIGRNGWEKIIDFKLTDDEQAAFNKSADAVR
NMNSVLAEMKLV