Structural insight into the stabilization of microtubules by taxanes
- Paul Scherrer Institute, Switzerland
- CSIC-Centro de Investigaciones Biologicas, Spain
- Chinese Academy of Medical Sciences & Peking Union Medical College, China
- ETH Zurich, Switzerland
- Chuo University, Japan
- Univeristy of Alcalá, Spain
Abstract
Paclitaxel (Taxol®) is a taxane and a first-line chemotherapeutic drug that stabilizes microtubules. While the interaction of paclitaxel with microtubules is well described, the current lack of high-resolution structural information on a tubulin-taxane complex precludes a comprehensive description of the binding determinants that affect the drug's mechanism of action. Here, we solved the crystal structure of the core baccatin III moiety of paclitaxel lacking the C13 side chain in complex with tubulin at 1.9 Å resolution. Based on this information, we engineered two tailor-made taxanes with modified C13 side chains, solved their crystal structures in complex with tubulin, and analyzed their effects along with those of paclitaxel, docetaxel, and baccatin III on the microtubule lattice by X-ray fiber diffraction. We then compared high-resolution structures of ligand-bound tubulin and microtubule complexes with apo forms and used molecular dynamics simulations to understand the consequences of taxane binding to tubulin as well as to simplified protofilament and microtubule-lattice models. Our combined approach sheds light on three mechanistic questions. Firstly, taxanes bind better to microtubules as compared to unassembled tubulin due to a dual structural mechanism: Tubulin assembly is linked to a conformational reorganization of the bM loop, which otherwise occludes ligand access to the taxane site, while the bulky C13 side chains preferentially recognize the microtubule-assembled over the unassembled conformational state of tubulin. Second, the occupancy of the taxane site by a ligand has no influence on the straightness of tubulin protofilaments. Finally, the longitudinal expansion of the microtubule lattices arises from the accommodation of the taxane core within the site, a process that is, however, not related to the microtubule stabilization mechanism of taxanes, as all analogs tested expand the microtubule lattice, despite the fact that one of them, Baccatin III, is biochemically inactive. In conclusion, our combined experimental and computational approach allowed us to describe the tubulin-taxane interaction in atomic detail and assess the structural determinants for binding.
Data availability
Diffraction data have been deposited in PDB under the accession codes 8BDE (T2R-TTL-BacIII), 8BDF (T2R-TTL-2a) and 8BDG ((T2R-TTL-2b).
Article and author information
Author details
Daniel Lucena-Agell
Fernando Josa-Prado
Funding
Ministerio de Ciencia e Innovación (PID2019-104545RB-I00)
- J Fernando Díaz
Consejo Superior de Investigaciones Científicas (PIE 201920E111)
- J Fernando Díaz
Fundación Tatiana Pérez de Guzmán el Bueno (Proyecto de Investigación en Neurociencia 2020)
- J Fernando Díaz
European Union NextGenerationEU (H2020-MSCA-ITN-2019 860070 TUBINTRAIN)
- Andrea E Prota
- J Fernando Díaz
Swiss National Science Foundation (310030_192566)
- Michel O Steinmetz
JSPS KAKENHI (16K07328/17H03668)
- Shinji Kamimura
National Natural Science Foundation of China (30930108)
- Wei-Shuo Fang
Chinese Academy of Medical Sciences (2016-I2M-1-010)
- Wei-Shuo Fang
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Copyright
© 2023, Prota et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
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Structural insight into the stabilization of microtubules by taxanes
eLife 12:e84791.
https://doi.org/10.7554/eLife.84791
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