Protein Info for GFF981 in Variovorax sp. SCN45

Annotation: Dihydrolipoamide dehydrogenase of 2-oxoglutarate dehydrogenase (EC 1.8.1.4)

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

• TIGR01350: dihydrolipoyl dehydrogenase
  • amino acids 5 to 474 (470 residues), 538.6 bits, E=5.8e-166
• PF07992: Pyr_redox_2
  • amino acids 6 to 338 (333 residues), 242.9 bits, E=2e-75
• PF00890: FAD_binding_2
  • amino acids 7 to 37 (31 residues), 24.9 bits, see alignment (E = 4.7e-09)
• PF12831: FAD_oxidored
  • amino acids 7 to 57 (51 residues), 28.9 bits, 3e-10
• PF01134: GIDA
  • amino acids 7 to 156 (150 residues), 29.6 bits, E=1.6e-10
• PF00070: Pyr_redox
  • amino acids 188 to 259 (72 residues), 57.5 bits, E=6.5e-19
• PF02852: Pyr_redox_dim
  • amino acids 357 to 466 (110 residues), 134.2 bits, E=8.5e-43

Best Hits

Swiss-Prot: 64% identical to DLDH_CUPNH: Dihydrolipoyl dehydrogenase (odhL) from Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)

KEGG orthology group: K00382, dihydrolipoamide dehydrogenase [EC: 1.8.1.4] (inferred from 96% identity to vap:Vapar_2173)

MetaCyc: 53% 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)
• folate transformations II (plants) (9/11 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)
• 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 (5/9 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

Protein Sequence (476 amino acids)

>GFF981 Dihydrolipoamide dehydrogenase of 2-oxoglutarate dehydrogenase (EC 1.8.1.4) (Variovorax sp. SCN45)
MANKQFDVVVIGGGPGGYIAAIRAAQLGFNVACVDEWKNGKGGPAPGGTCTNVGCIPSKA
LLQSSEHFDQAGHHFADHGIKVEGLGLDIDKMLARKDQVVKQNNDGILYLFKKNKITFFH
GRASFVKTDETGYELKVAGATEESISGKHVVIATGSNARALPGAPFDEENILSNDGALRI
GAVPKKLGLIGSGVIGLEMGSVWRRLGAEVTVLEALPTFLGAVDEQIAKEAKKAFDKQKL
KIELGVKVGEIKSSKKGVSVAWTNAKGEAQTLEVDKLIVSIGRVPNTIGLNAEAVGLKLD
ERGAIAVDDECKTNLPNVWAIGDVVRGPMLAHKAEEEGVAVAERIAGQHGHVNFNTIPWV
IYTNPEIAWVGQTEQQLKAAGRAYKAGTFPFLANGRARALGDTTGMVKFLADATTDEILG
VHIVGPQASELISEAVVAMEFKASAEDIARICHAHPSLSEATKEAALAVDKRTLNF