Properties of Cavities in Biological Structures—A Survey of the Protein Data Bank

We performed a PDB-wide survey of proteins to assess their cavity content, using the SPACEBALL algorithm to calculate the cavity volumes. In addition, we determined the hydropathy character of the cavities. We demonstrate that the cavities of most proteins are hydrophilic, but smaller proteins tend...

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Bibliographic Details
Main Authors: Mateusz Chwastyk, Ewa A. Panek, Jan Malinowski, Mariusz Jaskólski, Marek Cieplak
Format: Article
Language:English
Published: Frontiers Media S.A. 2020-11-01
Series:Frontiers in Molecular Biosciences
Subjects:
Online Access:https://www.frontiersin.org/articles/10.3389/fmolb.2020.591381/full