Structural Classification of Proteins

Fold: Thiamin diphosphate-binding fold (THDP-binding)

: 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213465

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: Thiamin diphosphate-binding fold (THDP-binding) [52517]
3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213465

Superfamilies:

Thiamin diphosphate-binding fold (THDP-binding) [52518] (8)
there are two different functional modules of this fold: pyridine-binding (Pyr) and pyrophosphate-binding (PP) modules
two Pyr and two PP modules assemble together in a conserved heterotetrameric core that binds two THDP coenzyme molecules
uperfamily
1. Pyruvate oxidase and decarboxylase Pyr module [88724] (12)
  the N-terminal, Pyr module is separated from the C-terminal, PP module by an alpha/beta domain of Rossmann-like topology
  1. Pyruvate decarboxylase [88725]
    1. Brewer's yeast (Saccharomyces), uvarum strain [TaxId: 4932] [88726] (1)
    2. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88727] (2)
    3. Zymomonas mobilis [TaxId: 542] [88728] (1)
  2. Indole-3-pyruvate decarboxylase [89648]
    1. Enterobacter cloacae [TaxId: 550] [89649] (1)
  3. Pyruvate oxidase [88729]
    1. Lactobacillus plantarum [TaxId: 1590] [88730] (12)
    2. Aerococcus viridans [TaxId: 1377] [142203] (4)
  4. Benzoylformate decarboxylase [88731]
    1. Pseudomonas putida [TaxId: 303] [88732] (12)
      SQ P20906
  5. Acetohydroxyacid synthase catalytic subunit [88733]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88734] (6)
      SQ P07342 84-687
    2. Thale cress (Arabidopsis thaliana), chloroplast [TaxId: 3702] [142204] (6)
      SQ P17597 86-280
  6. Catabolic acetolactate synthase [102328]
    1. Klebsiella pneumoniae [TaxId: 573] [102329] (3)
  7. Carboxyethylarginine synthase [102330]
    1. Streptomyces clavuligerus [TaxId: 1901] [102331] (11)
  8. Oxalyl-CoA decarboxylase [142205]
    1. Oxalobacter formigenes [TaxId: 847] [142206] (12)
      SQ P40149 7-194
2. TK-like Pyr module [88735] (5)
  different order of the modules, PP module is N-terminal, Pyr module is next to it followed by a Rossmann-like domain
  1. Transketolase (TK), Pyr module [88736]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88737] (7)
    2. Maize (Zea mays) [TaxId: 4577] [88738] (1)
    3. Escherichia coli [TaxId: 562] [89650] (7)
    4. Leishmania mexicana mexicana [TaxId: 44270] [117521] (1)
      SQ Q8MPM3
  2. Pyruvate dehydrogenase E1 component, Pyr module [88739]
    E1A and E1B fused together in a single-chain protein
    1. Escherichia coli [TaxId: 562] [88740] (14)
3. Branched-chain alpha-keto acid dehydrogenase Pyr module [88741] (6)
  parent family to TK and PFOR
  heterodimeric protein related to TK; alpha-subunit is the PP module and the N-terminal domain of beta-subunit is the Pyr module
  1. Branched-chain alpha-keto acid dehydrogenase, Pyr module [88742]
    1. Human (Homo sapiens) [TaxId: 9606] [88743] (21)
      SQ P21953 52-392
    2. Thermus thermophilus [TaxId: 274] [102332] (4)
  2. 2-oxoisovalerate dehydrogenase (E1B), Pyr module [88744]
    chain A is alpha-subunit and chain B is beta-subunit
    1. Pseudomonas putida [TaxId: 303] [88745] (5)
  3. E1-beta subunit of pyruvate dehydrogenase, Pyr module [69472]
    1. Archaeon Pyrobaculum aerophilum [TaxId: 13773] [69473] (1)
    2. Human (Homo sapiens) [TaxId: 9606] [89653] (3)
  4. Pyruvate dehydrogenase E1-beta, PdhB, N-terminal domain [117522]
    1. Bacillus stearothermophilus [TaxId: 1422] [117523] (2)
      SQ P21874
4. PFOR Pyr module [88746] (1)
  domains VI, I and II are arranged in the same way as the TK PP, Pyr and C domains
  1. Pyruvate-ferredoxin oxidoreductase, PFOR, domain I [88747]
    1. Desulfovibrio africanus [TaxId: 873] [88748] (17)
5. Pyruvate oxidase and decarboxylase PP module [88749] (12)
  the N-terminal, Pyr module is separated from the C-terminal, PP module by an alpa/beta domain of Rossmann-like topology
  1. Pyruvate decarboxylase [88750]
    1. Brewer's yeast (Saccharomyces), uvarum strain [TaxId: 4932] [88751] (1)
    2. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88752] (2)
    3. Zymomonas mobilis [TaxId: 542] [88753] (1)
  2. Indole-3-pyruvate decarboxylase [89654]
    1. Enterobacter cloacae [TaxId: 550] [89655] (1)
  3. Pyruvate oxidase [88754]
    1. Lactobacillus plantarum [TaxId: 1590] [88755] (12)
    2. Aerococcus viridans [TaxId: 1377] [142207] (4)
  4. Benzoylformate decarboxylase [88756]
    1. Pseudomonas putida [TaxId: 303] [88757] (12)
      SQ P20906
  5. Acetohydroxyacid synthase catalytic subunit [88758]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88759] (6)
      SQ P07342 84-687
    2. Thale cress (Arabidopsis thaliana), chloroplast [TaxId: 3702] [142208] (6)
      SQ P17597 460-667
  6. Catabolic acetolactate synthase [102333]
    1. Klebsiella pneumoniae [TaxId: 573] [102334] (3)
  7. Carboxyethylarginine synthase [102335]
    1. Streptomyces clavuligerus [TaxId: 1901] [102336] (11)
  8. Oxalyl-CoA decarboxylase [142209]
    1. Oxalobacter formigenes [TaxId: 847] [142210] (12)
      SQ P40149 370-552
6. TK-like PP module [88760] (5)
  different order of the modules, PP module is N-terminal, Pyr module is next to it followed by a Rossmann-like domain
  1. Transketolase (TK), PP module [88761]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [88762] (7)
    2. Maize (Zea mays) [TaxId: 4577] [88763] (1)
    3. Escherichia coli [TaxId: 562] [89656] (7)
    4. Leishmania mexicana mexicana [TaxId: 44270] [117524] (1)
      SQ Q8MPM3
  2. Pyruvate dehydrogenase E1 component, PP module [88764]
    E1A and E1B fused together in a single-chain protein
    1. Escherichia coli [TaxId: 562] [88765] (14)
7. Branched-chain alpha-keto acid dehydrogenase PP module [88766] (5)
  parent family to TK and PFOR
  heterodimeric protein related to TK; alpha-subunit is the PP module and the N-terminal domain of beta-subunit is the Pyr module
  1. Branched-chain alpha-keto acid dehydrogenase, PP module [88767]
    1. Human (Homo sapiens) [TaxId: 9606] [88768] (23)
      SQ P12694 52-445
    2. Thermus thermophilus [TaxId: 274] [102337] (4)
  2. E1-beta subunit of pyruvate dehydrogenase (PP module) [89651]
    1. Human (Homo sapiens) [TaxId: 9606] [89652] (3)
  3. 2-oxoisovalerate dehydrogenase (E1B), PP module [88769]
    chain A is alpha-subunit and chain B is beta-subunit
    1. Pseudomonas putida [TaxId: 303] [88770] (5)
  4. Pyruvate dehydrogenase E1-alpha, PdhA [117525]
    1. Bacillus stearothermophilus [TaxId: 1422] [117526] (2)
      SQ P21873
8. PFOR PP module [88771] (1)
  domains VI, I and II are arranged in the same way as the TK PP, Pyr and C domains
  1. Pyruvate-ferredoxin oxidoreductase, PFOR, domains VI [88772]
    1. Desulfovibrio africanus [TaxId: 873] [88773] (17)