Reconstructing free-energy landscapes for cyclic molecular motors using full multidimensional or partial one-dimensional dynamic information
| Autor: | Michael W. Jack, K. J. Challis, N. J. López-Alamilla |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
Computer science
01 natural sciences 010305 fluids & plasmas Variety (cybernetics) Interpretation (model theory) Dimension (vector space) Robustness (computer science) 0103 physical sciences Trajectory Molecular motor Energy transformation Statistical physics 010306 general physics Energy (signal processing) |
| Zdroj: | Physical Review E. 100 |
| ISSN: | 2470-0053 2470-0045 |
| Popis: | Diffusion on a free-energy landscape is a fundamental framework for describing molecular motors. In the landscape framework, energy conversion between different forms of energy, e.g., chemical and mechanical, is explicitly described using multidimensional nonseparable potential landscapes. We present a $k$-space method for reconstructing multidimensional free-energy landscapes from stochastic single-molecule trajectories. For a variety of two-dimensional model potential landscapes, we demonstrate the robustness of the method by reconstructing the landscapes using full dynamic information, i.e., simulated two-dimensional stochastic trajectories. We then consider the case where the stochastic trajectory is known only along one dimension. With this partial dynamic information, the reconstruction of the full two-dimensional landscape is severely limited in the majority of cases. However, we reconstruct effective one-dimensional landscapes for the two-dimensional model potentials. We discuss the interpretation of the one-dimensional landscapes and identify signatures of energy conversion. Finally, we consider the implications of these results for biological molecular motors experiments. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|