Protein Info for AO356_22975 in Pseudomonas fluorescens FW300-N2C3

Updated annotation (from data): Dihydrolipoyl dehydrogenase (EC 1.8.1.4)
Rationale: Specifically important for utilizing L-Isoleucine; L-Leucine. Automated validation from mutant phenotype: the predicted function (1.8.1.4) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
Original 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

• TIGR01350: dihydrolipoyl dehydrogenase
  • amino acids 8 to 460 (453 residues), 481.3 bits, E=1.4e-148
• PF07992: Pyr_redox_2
  • amino acids 9 to 323 (315 residues), 246.1 bits, E=2.4e-76
• PF13738: Pyr_redox_3
  • amino acids 10 to 307 (298 residues), 43.6 bits, E=1.1e-14
• PF01134: GIDA
  • amino acids 10 to 59 (50 residues), 20.4 bits, 1.1e-07
• PF00070: Pyr_redox
  • amino acids 174 to 245 (72 residues), 67.6 bits, E=5.3e-22
• PF02852: Pyr_redox_dim
  • amino acids 342 to 451 (110 residues), 103.7 bits, E=3e-33

Best Hits

Swiss-Prot: 79% identical to DLDH1_PSEPU: Dihydrolipoyl dehydrogenase (lpdV) from Pseudomonas putida

KEGG orthology group: K00382, dihydrolipoamide dehydrogenase [EC: 1.8.1.4] (inferred from 98% identity to pba:PSEBR_a3381)

MetaCyc: 41% identical to dihydrolipoyl dehydrogenase component subunit (Bacillus subtilis)
2-oxoisovalerate dehydrogenase (acylating). [EC: 1.2.1.25, 1.8.1.4]; RXN-7716 [EC: 1.2.1.25, 1.8.1.4, 1.2.1.105]; RXN0-1132 [EC: 1.2.1.25, 1.8.1.4, 1.2.1.105, 1.2.1.104]

Predicted SEED Role

"Dihydrolipoamide dehydrogenase of branched-chain alpha-keto acid dehydrogenase (EC 1.8.1.4)" in subsystem Isoleucine degradation or Leucine Degradation and HMG-CoA Metabolism or Valine degradation (EC 1.8.1.4)

MetaCyc Pathways

• anteiso-branched-chain fatty acid biosynthesis (30/34 steps found)
• even iso-branched-chain fatty acid biosynthesis (30/34 steps found)
• odd iso-branched-chain fatty acid biosynthesis (30/34 steps found)
• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (21/26 steps found)
• superpathway of glyoxylate bypass and TCA (10/12 steps found)
• photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (20/26 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (17/22 steps found)
• pyruvate fermentation to acetate and (S)-lactate I (4/4 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)
• pyruvate decarboxylation to acetyl CoA I (3/3 steps found)
• pyruvate fermentation to acetate II (3/3 steps found)
• TCA cycle I (prokaryotic) (8/10 steps found)
• L-isoleucine degradation I (5/6 steps found)
• L-leucine degradation I (5/6 steps found)
• 1-butanol autotrophic biosynthesis (engineered) (20/27 steps found)
• L-valine degradation I (6/8 steps found)
• pyruvate fermentation to acetate V (2/3 steps found)
• TCA cycle VIII (Chlamydia) (4/6 steps found)
• L-threonine degradation V (1/2 steps found)
• TCA cycle II (plants and fungi) (6/9 steps found)
• TCA cycle III (animals) (6/10 steps found)
• 2-oxobutanoate degradation I (1/4 steps found)
• L-lysine degradation II (L-pipecolate pathway) (4/9 steps found)
• superpathway of L-methionine salvage and degradation (9/16 steps found)
• L-lysine degradation XI (1/5 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (4/10 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (8/17 steps found)
• L-tryptophan degradation III (eukaryotic) (3/15 steps found)
• superpathway of L-lysine degradation (19/43 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 1.2.1.104 or 1.2.1.105 or 1.2.1.25 or 1.8.1.4

Sequence Analysis Tools

See A0A0N9XDK6 at UniProt or InterPro

Protein Sequence (461 amino acids)

>AO356_22975 Dihydrolipoyl dehydrogenase (EC 1.8.1.4) (Pseudomonas fluorescens FW300-N2C3)
MQQTLNTTLLIIGGGPGGYVAAIRAGQLGISTILVEGQALGGTCLNIGCIPSKALIHVAE
QFHQTRHHSQGSALGITVAAPTLDIGKSVEWKDGIVDRLTTGVAALLKKHKVQVIHGWAK
VIDGKTVEVGDTRIQCEHLLLATGSKSVNLPMLPLGGPIISSTEALAPTSVPKHLVVVGG
GYIGLELGIAYRKLGAEVSVVEAQERILPAYDGELTQPVHEALKQLGVKLYLKHSVEGFD
AQASTLQVRDPNGDTLNLETDRVLVAVGRKPNTQGWNLAALDLAMNGSAVKIDSRCQTSM
RNVWAIGDLSGEPMLAHRAMAQGEMVAELIAGQHREFNPTAIAAVCFTDPELVVVGKTPD
EAKAAGLDCLVSSFPFAANGRAMTLESKSGFVRVVARRDNHLIVGWQAVGVGVSELSTAF
GQSLEMGARLEDIAGTIHAHPTLGEAVQEAALRALGHALHL