期刊
ANNUAL REVIEW OF BIOCHEMISTRY
卷 77, 期 -, 页码 443-477出版社
ANNUAL REVIEWS
DOI: 10.1146/annurev.biochem.77.060407.135530
关键词
architecture; assembly; complex; configuration; hybrid methods; restraints
资金
- Medical Research Council [G0600084] Funding Source: Medline
- NCRR NIH HHS [U54 RR 022220] Funding Source: Medline
- NIGMS NIH HHS [R01 GM 54762] Funding Source: Medline
- NATIONAL CENTER FOR RESEARCH RESOURCES [U54RR022220] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R01GM054762] Funding Source: NIH RePORTER
- MRC [G0600084] Funding Source: UKRI
To understand the cell, we need to determine the macromolecular assembly structures, which may consist of tens to hundreds of components. First, we review the varied experimental data that characterize the assemblies at several levels of resolution. We then describe computational methods for generating the structures using these data. To maximize completeness, resolution, accuracy, precision, and efficiency of the structure determination, a computational approach is required that uses spatial information from a variety of experimental methods. We propose such an approach, defined by its three main components: a hierarchical representation of the assembly, a scoring function consisting of spatial restraints derived from experimental data, and an optimization method that generates structures consistent with the data. This approach is illustrated by determining the configuration of the 456 proteins in the nuclear pore complex (NPC) from baker's yeast. With these tools, we are poised to integrate structural information gathered at multiple levels of the biological hierarchy-from atoms to cells-into a common framework.
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