Pyruvate dehydrogenase 3D structures

3D structures of pyruvate dehydrogenase

Updated on 27-August-2026

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• Pyruvate dehydrogenase E1 domain
  • 3exe - hPDH E1 α + β subunits - human
    
  • 1ni4, 6cfo – hPDH E1 α + β (mutant) subunits
    
  • 2ozl, 3exg, 3exh, 3exi, 6cer - hPDH E1 α (mutant) + β subunits
    
  • 3exf - hPDH E1 α (mutant) + β subunits + TDP
    
  • 1ik6 – PaPDH E1 β subunit – Pyrobaculum aerophilum
    
  • 1l8a, 2g25, 2g67, 2iea – EcPDH E1 – Escherichia coli
    
  • 3ey9, 3eya – EcPDH (cytochrome)
    
  • 2qta, 3lpl, 3lq2, 3lq4 - EcPDH E1 (mutant)
    
  • 2qtc - EcPDH E1 (mutant) + phosphonolactylthiamin diphosphate
    
  • 1rp7 - EcPDH E1 + inhibitor
    
  • 4qoy - EcPDH E1 + PDH E2
    
• Pyruvate dehydrogenase E2 see Dihydrolipoyl transacetylase and Dihydrolipoamide acetyltransferase; Domains – peripheral-subunit binding (PSB) 118-170; lipoyl 179-282; catalytic 395-697
  • 3b8k, 6ct0, 8piu – hPDH E2 – Cryo EM
    
  • 7uom – hPDH E2 catalytic domain – Cryo EM
    
  • 8x03 – PDH E2 – bovine - Cryo EM
    
  • 8x03, 9j1w – PDH E2 – pig - Cryo EM
    
  • 7bgj, 7ott, 7q5r – PDH E2 – Thermochaetoides thermophila – Cryo EM
    
  • 7b9k, 8orb – EcPDH E2 catalytic domain – Cryo EM
    
  • 4n72, 8osy – EcPDH E2 catalytic domain
    
  • 1fyc, 1qjo, 2k7v – EcPDH E2 lipoyl domain - NMR
    
  • 8oqj - EcPDH E2 PSB
    
  • 1w4i, 1w4j, 1w4k - PaPDH E2 PSB - NMR
    
  • 1eaa, 1eab, 1eac, 1ead, 1eae, 1eaf – AvPDH E2 catalytic domain – Azotobacter vinelandii
    
  • 1iyu, 1iyv – AvPDH E2 1-79 – NMR
    
  • 6zzi, 6zzm – CmPDH E2 catalytic domain – Corynebacterium mustelae
    
  • 6zzj – CmPDH E2 catalytic domain + acetylCoA
    
  • 6zzl – CgPDH E2 catalytic domain - Corynebacterium glutamicum
    
  • 6zzk – CgPDH E2 catalytic domain + acetylCoA + dihydropolyamide
    
  • 9y6t, 9y72 – MtPDH E2 catalytic domain – Mycobacterium tuberculosis – Cryo EM
    
  • 9y7v – MtPDH E2 catalytic domain + acetylCoA – Cryo EM
    
  • 9ukz - BsPDH E2 catalytic domain – Bacillus stearothermophilus – Cryo EM
    
  • 1w3d, 2pdd, 2pde - BsPDH E2 PSB - NMR
    
  • 1lab, 1lac – BsPDH E2 lipoyl domain - NMR
    
• Pyruvate dehydrogenase E1+E2
  • 1w85, 1w88 - BsPDH E1 α + β subunits + PDH E2 peripheral-subunit binding domain
    
  • 3duf, 3dv0 - BsPDH E1 α + β subunits + PDH E2
    
  • 3dva - BsPDH E1 α (mutant) + β subunits + PDH E2
    
  • 9h1n - EcPDH E1 2-50 + PDH E2 315-380
    
• Pyruvate dehydrogenase E3 or dihydrolipoyl dehydrogenase
  • 6h60 – hPDH protein X – Cryo EM
    
  • 1zy8 – hPDH protein X + dihydrolipoyl dehydrogenase
    
  • 2f5z - hPDH protein X (mutant) + dihydrolipoyl dehydrogenase
    
  • 2f60 - hPDH protein X (mutant)
    
  • 2dnc, 2dne - hPDH protein X N terminal - NMR
    
  • 2g25 - hPDH protein X + phosphonolactylthiamin diphosphate
    
  • 2g28 - hPDH protein X (mutant) + phosphonolactylthiamin diphosphate
    
  • 2eq8 – TtPDH E3 – Thermus thermophilus
    
  • 4jdr, 4jq9 – EcPDH E3
    
  • 1gjx – PDH E3 lipoyl domain – Neisseria meningitis – NMR
    
  • 6zlm, 6zlo, 7r5m, 8ohs – NcPDH protein X + E2 – Neurospora crassa - Cryo EM
    
• Pyruvate dehydrogenase E2+E3
  • 9h2i - EcPDH E2 catalytic domain + PDH E3
    

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Michal Harel