7OJO
Tankyrase 2 in complex with two small molecule fragments
This is a non-PDB format compatible entry.
Summary for 7OJO
| Entry DOI | 10.2210/pdb7ojo/pdb |
| Descriptor | Poly [ADP-ribose] polymerase tankyrase-2, quinazolin-4(3H)-one, 4-acetamido-~{N}-(2-methoxyphenyl)benzamide, ... (7 entities in total) |
| Functional Keywords | inhibitor, complex, poly-adp-ribosylation, enzyme, transferase |
| Biological source | Homo sapiens (human) More |
| Total number of polymer chains | 4 |
| Total formula weight | 51260.29 |
| Authors | Sowa, S.T.,Lehtio, L. (deposition date: 2021-05-17, release date: 2022-06-01, Last modification date: 2025-06-25) |
| Primary citation | Sowa, S.T.,Kucukdisli, M.,Mostinski, Y.,Schaller, D.A.,Vinagreiro, C.S.,Cirillo, D.,Bosetti, C.,Brinch, S.A.,van Laar, K.,Wegert, A.,Leenders, R.G.G.,Krauss, S.,Waaler, J.,Volkamer, A.,Lehtio, L.,Nazare, M. Deconstruction of Dual-Site Tankyrase Inhibitors Provides Insights into Binding Energetics and Suggests Critical Hotspots for Ligand Optimization. J.Med.Chem., 68:7263-7279, 2025 Cited by PubMed Abstract: Designing inhibitors is a complex task that requires a deep understanding of protein-ligand interactions and their dynamics. Ligands often interact with multiple binding subsites, with noncovalent interactions affecting binding affinity. Conformational changes and plasticity of both, the ligand and the protein influence binding energetics. We investigated the tankyrase ADP-ribosyltransferase as a promising drug target regulating many cellular pathways. Despite the existence of diverse tankyrase inhibitors, their binding energetics and contributions of flexible cryptic subpockets to binding affinity remain elusive. To examine these aspects, we deconstructed inhibitors to key fragments, dissected their energetic contribution to the affinity, and determined their binding mode by X-ray crystallography. Varying ligand efficiencies of the deconstructed, pocket-binding fragments revealed the cryptic nature of subpockets. These insights enabled us to redesign inhibitors with novel linkers, the observed key area for optimization, increasing the potency in enzymatic and cell-based assays by 7.5-fold and 6.2-fold compared to the parent ligand. PubMed: 40134122DOI: 10.1021/acs.jmedchem.4c02845 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.3 Å) |
Structure validation
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