_EC 1.2.4.1 Pyruvate dehydrogenase (acetyl-transferring). 24 PDB entries  
EC 1.-.-.- Oxidoreductases. [8,844 PDB entries]
EC 1.2.-.- Acting on the aldehyde or oxo group of donors. [510 PDB entries]
EC 1.2.4.- With a disulfide as acceptor. [67 PDB entries]
EC 1.2.4.1 Pyruvate dehydrogenase (acetyl-transferring). [24 PDB entries]    
1l8a

Pathway: Oxo-acid dehydrogenase complexes
Reaction: Pyruvate + [dihydrolipoyllysine-residue acetyltransferase] lipoyllysine = [dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine + CO(2).
 


Pyruvate
+ [dihydrolipoyllysine-residue acetyltransferase] lipoyllysine
= [dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine
+
CO(2)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site.

Other name(s): MtPDC (mitochondrial pyruvate dehydogenase complex). Pyruvate decarboxylase. Pyruvate dehydrogenase. Pyruvate dehydrogenase (lipoamide). Pyruvate dehydrogenase complex. Pyruvate:lipoamide 2-oxidoreductase (decarboxylating and acceptor- acetylating). Pyruvic acid dehydrogenase. Pyruvic dehydrogenase.
Cofactor(s): Thiamine diphosphate.
 

Thiamine diphosphate
Molecule diagrams generated from .mol files obtained from the KEGG ftp site.
Comments: It is a component (in multiple copies) of the multienzyme pyruvate dehydrogenase complex in which it is bound to a core of molecules of Ec 2.3.1.12, which also binds multiple copies of Ec 1.8.1.4. It does not act on free lipoamide or lipoyllysine, but only on the lipoyllysine residue in Ec 2.3.1.12.
Links:   [IntEnz]   [ExPASy]   [KEGG]  

There are 24 PDB entries in enzyme class E.C.1.2.4.1

  PDB code Protein
1l8a
E. Coli pyruvate dehydrogenase
Source: Escherichia coli. Organism_taxid: 562. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
1ni4
Human pyruvate dehydrogenase
Source: Homo sapiens. Human. Organism_taxid: 9606. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B, C, D (362 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group TPP corresponds to enzyme cofactor Thiamine diphosphate
1rp7
E. Coli pyruvate dehydrogenase inhibitor complex
Source: Escherichia coli, escherichia coli o157:h7. ,. Organism_taxid: 562,83334. Strain: , o157:h7. Gene: acee, b0114, z0124, ecs0118. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TZD is 96.00% similar to enzyme cofactor Thiamine diphosphate
1w85
The crystal structure of pyruvate dehydrogenase e1 bound to the peripheral subunit binding domain of e2
Source: Geobacillus stearothermophilus. Organism_taxid: 1422. Expressed in: escherichia coli. Expression_system_taxid: 562. Expression_system_taxid: 562
Chains: A, B, C, D, E, F, G, H (359 residues) CATH domain: 3.40.50.970
Bound ligands:   Het Group PEG is 44.00% similar to enzyme reactant pyruvate
  Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
1w88
The crystal structure of pyruvate dehydrogenase e1(d180n, e183q) bound to the peripheral subunit binding domain of e2
Source: Geobacillus stearothermophilus. Organism_taxid: 1422. Expressed in: escherichia coli. Expression_system_taxid: 562. Expression_system_taxid: 562
Chains: A, B, C, D, E, F, G, H (341 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
2g25
E. Coli pyruvate dehydrogenase phosphonolactylthiamin diphosphate complex
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (831 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDK is 76.00% similar to enzyme cofactor Thiamine diphosphate
2g28
E. Coli pyruvate dehydrogenase h407a variant phosphonolactylthiamin diphosphate complex
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDK is 76.00% similar to enzyme cofactor Thiamine diphosphate
2g67
E. Coli pyruvate dehydrogenase e1 component (apoenzyme)
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
2iea
E. Coli pyruvate dehydrogenase
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
2ozl
Human pyruvate dehydrogenase s264e variant
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B, C, D (362 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group TPP corresponds to enzyme cofactor Thiamine diphosphate
2qta
E. Coli pyruvate dehydrogenase e1 component e401k mutant wit diphosphate
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine
2qtc
E. Coli pyruvate dehydrogenase e1 component e401k mutant wit phosphonolactylthiamin diphosphate
Source: Escherichia coli. Organism_taxid: 562. Gene: acee. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDK is 76.47% similar to enzyme cofactor Thiamine
3duf
Snapshots of catalysis in the e1 subunit of the pyruvate dehydrogenase multi-enzyme complex
Source: Bacillus stearothermophilus. Gene: pdha. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb. Gene: pdhc.
Chains: A, B, C, D, E, F, G, H (365 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group R1T is 41.00% similar to enzyme cofactor Thiamine diphosphate
3dv0
Snapshots of catalysis in the e1 subunit of the pyruvate dehydrogenase multi-enzyme complex
Source: Bacillus stearothermophilus. Gene: pdha. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb. Gene: pdhc.
Chains: A, B, C, D, E, F, G, H (349 residues) CATH domain: 3.40.50.970
Bound ligands:   Het Group PYR corresponds to enzyme reactant pyruvate
  Het Group TPW is 44.00% similar to enzyme cofactor Thiamine diphosphate
3dva
Snapshots of catalysis in the e1 subunit of the pyruvate dehydrogenase multi-enzyme complex
Source: Bacillus stearothermophilus. Gene: pdha. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb. Gene: pdhc.
Chains: A, B, C, D, E, F, G, H (365 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group TPW is 44.00% similar to enzyme cofactor Thiamine diphosphate
3exe
Crystal structure of the pyruvate dehydrogenase (e1p) compon human pyruvate dehydrogenase complex
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B, C, D, E, F, G, H (363 residues) CATH domain: 3.40.50.970
Bound ligands:   Het Group GOL is 71.43% similar to enzyme reactant pyruvate
  Het Group TPP corresponds to enzyme cofactor Thiamine
3exf
Crystal structure of the pyruvate dehydrogenase (e1p) compon human pyruvate dehydrogenase complex
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B, C, D, E, F, G, H (362 residues) CATH domain: 3.40.50.970
Bound ligand:   Het Group TPP corresponds to enzyme cofactor Thiamine
3exg
Crystal structure of the pyruvate dehydrogenase (e1p) compon human pyruvate dehydrogenase complex
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 2, 3, 4, 5, 6 (342 residues) CATH domain: 3.40.50.970
3exh
Crystal structure of the pyruvate dehydrogenase (e1p) compon human pyruvate dehydrogenase complex
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B, C, D, E, F, G, H (359 residues) CATH domain: 3.40.50.970
Bound ligands:   Het Group GOL is 71.43% similar to enzyme reactant pyruvate
  Het Group TPP corresponds to enzyme cofactor Thiamine
3exi
Crystal structure of the pyruvate dehydrogenase (e1p) compon human pyruvate dehydrogenase complex with the subunit-bindi (sbd) of e2p, but sbd cannot be modeled into the electron d
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: pdha1, phe1a. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: pdhb, phe1b.
Chains: A, B (332 residues) CATH domain: 3.40.50.970
3lpl
E. Coli pyruvate dehydrogenase complex e1 component e571a mu
Source: Escherichia coli. Organism_taxid: 83334. Strain: o157:h7. Gene: acee, b0114, ecs0118, z0124. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP is 42.31% similar to enzyme cofactor Thiamine
3lq2
E. Coli pyruvate dehydrogenase complex e1 e235a mutant with low tdp concentration
Source: Escherichia coli. Organism_taxid: 83334. Strain: o157:h7. Gene: acee, b0114, ecs0118, z0124. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
3lq4
E. Coli pyruvate dehydrogenase complex e1 e235a mutant with high tdp concentration
Source: Escherichia coli. Organism_taxid: 83334. Strain: o157:h7. Gene: acee, b0114, ecs0118, z0124. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (801 residues) CATH domains: 3.40.50.970 3.40.50.970 3.40.50.920
Bound ligand:   Het Group TDP corresponds to enzyme cofactor Thiamine diphosphate
4qoy
Novel binding motif and new flexibility revealed by structur analysis of a pyruvate dehydrogenase-dihydrolipoyl acetyltr sub-complex from the escherichia coli pyruvate dehydrogenas enzyme complex
Source: Escherichia coli. Organism_taxid: 544404. Strain: o157:h7 tw14359 / ehec. Gene: acee, b0114, ecs0118, ecsp_0115, z0124. Expressed in: escherichia coli. Expression_system_taxid: 562. Organism_taxid: 83334. Strain: o157:h7. Gene: acef, ecs0119, z0125.
Chains: A, B, C, D (862 residues)