Protein Info for Atu2632 in Agrobacterium fabrum C58

Annotation: dihydrolipoamide 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

• PF07992: Pyr_redox_2
  • amino acids 3 to 330 (328 residues), 240.9 bits, E=1.1e-74
• TIGR01350: dihydrolipoyl dehydrogenase
  • amino acids 3 to 468 (466 residues), 588.4 bits, E=4.6e-181
• PF00890: FAD_binding_2
  • amino acids 4 to 40 (37 residues), 29.7 bits, 2.1e-10
• PF12831: FAD_oxidored
  • amino acids 4 to 48 (45 residues), 29.7 bits, 2.1e-10
• PF01134: GIDA
  • amino acids 4 to 145 (142 residues), 25.3 bits, E=3.9e-09
• PF13450: NAD_binding_8
  • amino acids 7 to 42 (36 residues), 27.7 bits, 1.3e-09
• PF13738: Pyr_redox_3
  • amino acids 124 to 314 (191 residues), 30 bits, E=1.6e-10
• PF00070: Pyr_redox
  • amino acids 177 to 253 (77 residues), 75.2 bits, E=2.5e-24
• PF02852: Pyr_redox_dim
  • amino acids 349 to 458 (110 residues), 146.3 bits, E=1.9e-46

Best Hits

Swiss-Prot: 57% identical to DLDH2_ARATH: Dihydrolipoyl dehydrogenase 2, mitochondrial (LPD2) from Arabidopsis thaliana

KEGG orthology group: K00382, dihydrolipoamide dehydrogenase [EC: 1.8.1.4] (inferred from 100% identity to atu:Atu2632)

MetaCyc: 56% identical to glycine cleavage system L protein 1 (Arabidopsis thaliana col)
GCVMULTI-RXN [EC: 1.4.1.27]

Predicted SEED Role

"Dihydrolipoamide dehydrogenase of 2-oxoglutarate dehydrogenase (EC 1.8.1.4)" in subsystem TCA Cycle (EC 1.8.1.4)

MetaCyc Pathways

• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
• folate transformations III (E. coli) (8/9 steps found)
• 2-oxoglutarate decarboxylation to succinyl-CoA (3/3 steps found)
• 2-oxoisovalerate decarboxylation to isobutanoyl-CoA (3/3 steps found)
• glycine biosynthesis II (3/3 steps found)
• glycine cleavage (3/3 steps found)
• glycine degradation (3/3 steps found)
• pyruvate decarboxylation to acetyl CoA I (3/3 steps found)
• folate transformations II (plants) (8/11 steps found)
• photorespiration I (6/9 steps found)
• photorespiration III (6/9 steps found)
• photorespiration II (6/10 steps found)
• folate transformations I (8/13 steps found)
• reductive glycine pathway of autotrophic CO₂ fixation (4/9 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
• Citrate cycle (TCA cycle)
• Glycine, serine and threonine metabolism
• Glycolysis / Gluconeogenesis
• Pyruvate metabolism
• Valine, leucine and isoleucine degradation

Isozymes

Compare fitness of predicted isozymes for: 1.8.1.4

Use Curated BLAST to search for 1.4.1.27 or 1.8.1.4

Sequence Analysis Tools

See A9CHK4 at UniProt or InterPro

Protein Sequence (468 amino acids)

>Atu2632 dihydrolipoamide dehydrogenase (Agrobacterium fabrum C58)
MAYDVVVIGTGPGGYVCAVKAAQLGLKVAVIEKRATYGGTCLNVGCIPSKALLHASETFA
HVAHGVDTLGIEVAAPKLNLEKMMGHKDGVVKANVDGVAFLFKKNKIDAFQGTGKVVSAG
KVSVTNDKGETQEIEAKNIVIATGSDVAGIPGVKVDIDETVIVSSTGAIALSKVPEKLIV
VGGGVIGLELGSVWSRLGAKVTVVEYLDNILGGMDGEVSKQSQRLLAKQGLDFKLGAKVT
AVEKTAAGAKVVFEPVKGGAAETLEADVVLISTGRKPYTEGLGLAEAGVVLDSRGRVEID
GHYKTNVDGIYAIGDVVKGPMLAHKAEDEGVALAEILAGQRGHVNYDVIPAVVYTQPEIA
SVGNTEEELKAAGVAYKVGKFPFTANGRARAMQVTDGFVKILADKETDRVLGGHIVGFGA
GEMIHEITVLMEFGGSSEDLGRTCHAHPTMSEAVKEAALATFFKPIHM