GPU加速的生物分子模拟

2024.07.08

投稿:龚惠英部门:理学院浏览次数:

活动信息

报告题目 (Title):GPU-Accelerated Biomolecular Simulations(GPU加速的生物分子模拟)

报告人 (Speaker):Prof. Huan-Xiang Zhou, University of Illinois Chicago, USA(周焕祥教授,美国伊利诺伊大学芝加哥分校)

报告时间 (Time):2024年7月11日(周四) 9:30

报告地点 (Place):校本部 E106

邀请人 (Inviter):郭聪 副教授

主办部门:理学院物理系

摘要 (Abstract):

Intrinsically disordered proteins (IDPs) account for a significant fraction of any proteome and are central to numerous cellular functions. Yet how sequences of IDPs code for their conformational ensembles, conformational dynamics, and ultimately, functions is poorly understood. I will report our advances from GPU-accelerated molecular dynamics simulations. Three topics will be covered. (I) IDPs in solution. Results include force field selection [1], AI-based conformational mining [2], and characterization and prediction of sequence-dependent backbone dynamics [3, 4]. (II) IDP-membrane association. Results include characterization of fuzzy membrane association [5] and prediction of residue-specific membrane association propensities [6]. (III) Liquid-liquid phase separation. Results include calculations of thermodynamic and dynamic properties of biomolecular condensates [7, 8].

1. A. Hicks, C. A. Escobar, T. A. Cross, and H.-X. Zhou (2020). Biomolecules 10, 946

2. A. Gupta, S. Dey, A. Hicks, and H.-X. Zhou (2022). Commun. Biol. 5, 610

3. S. Dey, M. MacAinsh, and H.-X. Zhou (2022). J. Chem. Theory Comput. 18, 6310-6323

4. S. Qin and H.-X. Zhou (2023). eLife 12, RP88953

5. A. Hicks, C. A. Escobar, T. A. Cross, and H.-X. Zhou (2021). JACS Au 1, 66-78

6. S. Qin, A. Hicks, S. Dey, R. Prasad, H.-X. Zhou (2022). Membranes 12, 773

7. K. Mazarakos, R. Prasad, and H.-X. Zhou (2022). Front. Mol. Biosci. 9, 1021939

8. D. Kota, R. Prasad, and H.-X. Zhou (2024). J. Am. Chem. Soc. 146, 1326-1336

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