Protein Info for Atu2639 in Agrobacterium fabrum C58

Annotation: putative 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 3 to 309 (307 residues), 423.8 bits, E=1.9e-131
• PF00056: Ldh_1_N
  • amino acids 5 to 143 (139 residues), 128.6 bits, E=1.9e-41
• PF02866: Ldh_1_C
  • amino acids 148 to 302 (155 residues), 120.4 bits, E=8.7e-39

Best Hits

Swiss-Prot: 100% identical to MDH_AGRFC: Malate dehydrogenase (mdh) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: K00024, malate dehydrogenase [EC: 1.1.1.37] (inferred from 100% identity to atu:Atu2639)

MetaCyc: 77% 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

• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
• superpathway of glyoxylate bypass and TCA (12/12 steps found)
• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (22/26 steps found)
• TCA cycle I (prokaryotic) (10/10 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (12/14 steps found)
• TCA cycle III (animals) (9/10 steps found)
• TCA cycle VIII (Chlamydia) (6/6 steps found)
• glyoxylate cycle (6/6 steps found)
• gluconeogenesis I (11/13 steps found)
• TCA cycle II (plants and fungi) (8/9 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (8/9 steps found)
• TCA cycle V (2-oxoglutarate synthase) (8/9 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (8/10 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (13/17 steps found)
• malate/L-aspartate shuttle pathway (2/2 steps found)
• L-malate degradation II (1/1 steps found)
• chitin deacetylation (3/4 steps found)
• anaerobic energy metabolism (invertebrates, cytosol) (5/7 steps found)
• L-carnitine degradation II (2/3 steps found)
• gluconeogenesis III (8/12 steps found)
• C4 photosynthetic carbon assimilation cycle, NAD-ME type (7/11 steps found)
• reductive TCA cycle I (7/11 steps found)
• incomplete reductive TCA cycle (4/7 steps found)
• pyruvate fermentation to propanoate I (4/7 steps found)
• methylgallate degradation (3/6 steps found)
• methylaspartate cycle (12/19 steps found)
• protocatechuate degradation I (meta-cleavage pathway) (4/8 steps found)
• superpathway of vanillin and vanillate degradation (5/10 steps found)
• mixed acid fermentation (9/16 steps found)
• reductive TCA cycle II (6/12 steps found)
• L-glutamate degradation VIII (to propanoate) (4/11 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (5/13 steps found)
• formaldehyde assimilation I (serine pathway) (5/13 steps found)
• syringate degradation (4/12 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (18/56 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: 1.1.1.38

Use Curated BLAST to search for 1.1.1.37 or 1.1.1.38

Sequence Analysis Tools

See Q7CWK7 at UniProt or InterPro

Protein Sequence (320 amino acids)

>Atu2639 putative malate dehydrogenase (Agrobacterium fabrum C58)
MARKKIALIGSGMIGGTLAHLASLKELGDIVLFDIADGIPQGKGLDIAQSGPVEGFNAKL
SGASDYAAIEGADVCIVTAGVARKPGMSRDDLLGINLKVMEQVGAGIKKYAPNAFVICIT
NPLDAMVWALQKFSGLPKNKVVGMAGVLDSARFRLFLAEEFNVSVQDVTAFVLGGHGDTM
VPLARYSTVGGVPLTDLVKMGWLTAERLEQIIQRTRDGGAEIVGLLKTGSAYYAPAASAI
EMAESYLKDKKRVLPAAAHLSGQYGVDDMYVGVPTIIGAGGIERVIEIELNKEEEAAFQK
SVGAVAGLCEACINIAPSLK