Investigating different dynamic pHP1α states in their KCl-mediated liquid-liquid phase separation (LLPS) using solid-state NMR (SSNMR) and molecular dynamic (MD) simulations

• Main Authors: Chin, Sze Yuet, Chen, Yinglu, Zhao, Lei, Liu, Xinyi, Chng, Choon-Peng, Soman, Aghil, Nordenskiöld, Lars, Huang, Changjin, Shi, Xiangyan, Xue, Kai
• Other Authors: School of Physical and Mathematical Sciences
• Format: Article
• Language: English
• Published: 2025
• Subjects: Chemistry; Molecular docking; Nuclear magnetic resonance
• Online Access: https://hdl.handle.net/10356/182262
• Institution: Nanyang Technological University

Chromatin phase separation is dynamically regulated by many factors, such as post-translational modifications and effector proteins, and plays a critical role in genomic activities. The liquid-liquid phase separation (LLPS) of chromatin and/or effector proteins has been observed both in vitro and in vivo. However, the underlying mechanisms are largely unknown, and elucidating the physicochemical properties of the phase-separated complexes remains technically challenging. In this study, we detected dynamic, viscous, and intermediate components within the phosphorylated heterochromatin protein 1α (pHP1α) phase-separated system by using modified solid-state NMR (SSNMR) pulse sequences. The basis of these sequences relies on the different time scale of motion detected by heteronuclear Overhauser effect (hetNOE), scalar coupling-based, and dipolar coupling-based transfer schemes in NMR. In comparison to commonly utilized scalar coupling-based methods for studying the dynamic components in phase-separated systems, hetNOE offers more direct insight into molecular dynamics. NMR signals from the three different states in the protein gel were selectively excited and individually studied. Combined with molecular dynamics (MD) simulations, our findings indicate that at low KCl concentration (30 mM), the protein gel displays reduced molecular motion. Conversely, an increase in molecular motion was observed at a high KCl concentration (150 mM), which we attribute to the resultant intermolecular electrostatic interactions regulated by KCl.