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Structural Characterization of Protein–Protein Interactions with pyDockSAXS

AuthorsJiménez-García, Brian; Bernadó, Pau; Fernández-Recio, Juan CSIC ORCID
KeywordsProtein–protein interactions
Structural modeling
Small-angle X-ray scattering (SAXS)
Computational docking
Issue Date2020
PublisherSpringer Nature
CitationStructural Bioinformatics 131-144 (2020)
SeriesMethods in Molecular Biology
AbstractStructural characterization of protein–protein interactions can provide essential details to understand biological functions at the molecular level and to facilitate their manipulation for biotechnological and biomedical purposes. Unfortunately, the 3D structure is available for only a small fraction of all possible protein–protein interactions, due to the technical limitations of high-resolution structural determination methods. In this context, low-resolution structural techniques, such as small-angle X-ray scattering (SAXS), can be combined with computational docking to provide structural models of protein–protein interactions at large scale. In this chapter, we describe the pyDockSAXS web server (https://life.bsc.es/pid/pydocksaxs), which uses pyDock docking and scoring to provide structural models that optimally satisfy the input SAXS data. This server, which is freely available to the scientific community, provides an automatic pipeline to model the structure of a protein–protein complex from SAXS data.
Publisher version (URL)https://doi.org/10.1007/978-1-0716-0270-6_10
Appears in Collections:(ICVV) Libros y partes de libros
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