3DV0
Snapshots of catalysis in the E1 subunit of the pyruvate dehydrogenase multi-enzyme complex
Summary for 3DV0
| Entry DOI | 10.2210/pdb3dv0/pdb |
| Related | 3DUF 3DVA |
| Descriptor | Pyruvate dehydrogenase E1 component subunit alpha, Pyruvate dehydrogenase E1 component subunit beta, Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, ... (8 entities in total) |
| Functional Keywords | oxidoreductase, pyruvate, dehydrogenase, dihydrolipoyl, acetyl transferase, multienzyme complex, transferase, glycolysis, phosphoprotein, thiamine pyrophosphate, acyltransferase, oxidoreductase-transferase complex, oxidoreductase/transferase |
| Biological source | Bacillus stearothermophilus More |
| Total number of polymer chains | 10 |
| Total formula weight | 403011.28 |
| Authors | Pei, X.Y.,Titman, C.M.,Frank, R.A.W.,Leeper, F.J.,Luisi, B.F. (deposition date: 2008-07-18, release date: 2009-01-13, Last modification date: 2023-11-15) |
| Primary citation | Pei, X.Y.,Titman, C.M.,Frank, R.A.,Leeper, F.J.,Luisi, B.F. Snapshots of catalysis in the e1 subunit of the pyruvate dehydrogenase multienzyme complex Structure, 16:1860-1872, 2008 Cited by PubMed Abstract: The pyruvate dehydrogenase multienzyme assembly (PDH) generates acetyl coenzyme A and reducing equivalents from pyruvate in a multiple-step process that is a nexus of central metabolism. We report crystal structures of the Geobacillus stearothermophilus PDH E1p subunit with ligands that mimic the prereaction complex and the postdecarboxylation product. The structures implicate residues that help to orient substrates, nurture intermediates, and organize surface loops so that they can engage a mobile lipoyl domain that receives the acetyl group and shuttles it to the next active site. The structural and enzymatic data suggest that H128beta performs a dual role: first, as electrostatic catalyst of the reaction of pyruvate with the thiamine cofactor; and second, as a proton donor in the second reaction of acetyl group with the lipoate. We also identify I206alpha as a key residue in mediating the conformation of active-site loops. We propose that a simple conformational flip of the H271alpha side chain assists transfer of the acetyl group from thiamine cofactor to lipoyl domain in synchrony with reduction of the dithiolane ring. PubMed: 19081062DOI: 10.1016/j.str.2008.10.009 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.5 Å) |
Structure validation
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