Protein Info for H281DRAFT_06632 in Paraburkholderia bryophila 376MFSha3.1
Annotation: malate dehydrogenase (NAD)
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
Best Hits
Swiss-Prot: 97% identical to MDH_PARPJ: Malate dehydrogenase (mdh) from Paraburkholderia phytofirmans (strain DSM 17436 / LMG 22146 / PsJN)
KEGG orthology group: K00024, malate dehydrogenase [EC: 1.1.1.37] (inferred from 98% identity to bgf:BC1003_4608)MetaCyc: 60% identical to malate dehydrogenase (Mycobacterium tuberculosis H37Rv)
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)
- anaerobic energy metabolism (invertebrates, cytosol) (7/7 steps found)
- superpathway of anaerobic energy metabolism (invertebrates) (14/17 steps found)
- glyoxylate cycle (6/6 steps found)
- mixed acid fermentation (13/16 steps found)
- gluconeogenesis III (10/12 steps found)
- methylgallate degradation (5/6 steps found)
- formaldehyde assimilation I (serine pathway) (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 glyoxylate bypass and TCA (9/12 steps found)
- L-malate degradation II (1/1 steps found)
- protocatechuate degradation I (meta-cleavage pathway) (6/8 steps found)
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (16/22 steps found)
- chitin deacetylation (3/4 steps found)
- C4 photosynthetic carbon assimilation cycle, NAD-ME type (8/11 steps found)
- superpathway of glyoxylate cycle and fatty acid degradation (10/14 steps found)
- L-carnitine degradation II (2/3 steps found)
- TCA cycle I (prokaryotic) (7/10 steps found)
- TCA cycle III (animals) (7/10 steps found)
- anaerobic energy metabolism (invertebrates, mitochondrial) (7/10 steps found)
- superpathway of vanillin and vanillate degradation (7/10 steps found)
- TCA cycle VIII (Chlamydia) (4/6 steps found)
- TCA cycle II (plants and fungi) (6/9 steps found)
- TCA cycle IV (2-oxoglutarate decarboxylase) (6/9 steps found)
- syringate degradation (7/12 steps found)
- methylaspartate cycle (12/19 steps found)
- reductive TCA cycle I (6/11 steps found)
- incomplete reductive TCA cycle (3/7 steps found)
- pyruvate fermentation to propanoate I (3/7 steps found)
- reductive TCA cycle II (6/12 steps found)
- (S)-lactate fermentation to propanoate, acetate and hydrogen (5/13 steps found)
- L-glutamate degradation VIII (to propanoate) (3/11 steps found)
- Methanobacterium thermoautotrophicum biosynthetic metabolism (24/56 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, 1.1.1.38
Use Curated BLAST to search for 1.1.1.37 or 1.1.1.38
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein structures
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
See A0A2Z5MMM2 at UniProt or InterPro
Protein Sequence (327 amino acids)
>H281DRAFT_06632 malate dehydrogenase (NAD) (Paraburkholderia bryophila 376MFSha3.1) MAKPAKRVAVTGAAGQIAYSLLFRIANGDLLGKDQPVVLQLLDLPQAQGAVKGVVMELDD CAFPLLSGVVITDDPKVAFKDADVALLVGARPRSKGMERKDLLSANAEIFTVQGKALNEV ASRDVKVLVVGNPANTNAYIAMKSAPDLPKKNFTAMLRLDHNRALSQLAAKSGKPVASIE KLAVWGNHSPTMYPDFRFATAEGQSLTKLINDDEWNRNTFIPTVGKRGAAIIEARGSSSA ASAANAAIDHVRDWVLGTNGKWVTMGVPSDGSYGIPEDIIYGVPVICENGEYKRVEGLEI DAFSREKMDATLQELLEEREGVQHLLG