Integrating Ion Mobility Mass Spectrometry with Molecular Modelling to Determine the Architecture of Multiprotein Complexes |
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| Authors: | Argyris Politis Ah Young Park Suk-Joon Hyung Daniel Barsky Brandon T. Ruotolo Carol V. Robinson |
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| Affiliation: | 1. Department of Chemistry, University of Oxford, Oxford, United Kingdom.; 2. Department of Chemistry, University of Michigan, Ann Arbor, Michigan, United States of America.; 3. Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California, United States of America.;National University of Singapore, Singapore |
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| Abstract: | Current challenges in the field of structural genomics point to the need for new tools and technologies for obtaining structures of macromolecular protein complexes. Here, we present an integrative computational method that uses molecular modelling, ion mobility-mass spectrometry (IM-MS) and incomplete atomic structures, usually from X-ray crystallography, to generate models of the subunit architecture of protein complexes. We begin by analyzing protein complexes using IM-MS, and by taking measurements of both intact complexes and sub-complexes that are generated in solution. We then examine available high resolution structural data and use a suite of computational methods to account for missing residues at the subunit and/or domain level. High-order complexes and sub-complexes are then constructed that conform to distance and connectivity constraints imposed by IM-MS data. We illustrate our method by applying it to multimeric protein complexes within the Escherichia coli replisome: the sliding clamp, (β2), the γ complex (γ3δδ′), the DnaB helicase (DnaB6) and the Single-Stranded Binding Protein (SSB4). |
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