Reaching new levels of realism in modeling biological macromolecules in cellular environments

• Cellular environments involve a wide range of temporal and spatial scales.
• Models of macromolecules in cellular environments ranging from atomistic to coarse-grained levels.
• Integration of models at different scales is a key challenge in achieving more realistic cellular models.

An increasing number of studies are aimed at modeling cellular environments in a comprehensive and realistic fashion. A major challenge in these efforts is how to bridge spatial and temporal scales over many orders of magnitude. Furthermore, there are additional challenges in integrating different aspects ranging from questions about biomolecular stability in crowded environments to the description of reactive processes on cellular scales. In this review, recent studies with models of biomolecules in cellular environments at different levels of detail are discussed in terms of their strengths and weaknesses. In particular, atomistic models, implicit representations of cellular environments, coarse-grained and spheroidal models of biomolecules, as well as the inclusion of reactive processes via reaction–diffusion models are described. Furthermore, strategies for integrating the different models into a comprehensive description of cellular environments are discussed.

Figure optionsDownload high-quality image (848 K)Download as PowerPoint slide