SARS-CoV-2 and the host cell: a tale of interactions

M Pizzato, C Baraldi, G Boscato Sopetto… - Frontiers in …, 2022 - frontiersin.org
The ability of a virus to spread between individuals, its replication capacity and the clinical
course of the infection are macroscopic consequences of a multifaceted molecular …

Leveraging crosslinking mass spectrometry in structural and cell biology

A Graziadei, J Rappsilber - Structure, 2022 - cell.com
Crosslinking mass spectrometry (crosslinking-MS) is a versatile tool providing structural
insights into protein conformation and protein-protein interactions. Its medium-resolution …

Methodology-centered review of molecular modeling, simulation, and prediction of SARS-CoV-2

K Gao, R Wang, J Chen, L Cheng, J Frishcosy… - Chemical …, 2022 - ACS Publications
Despite tremendous efforts in the past two years, our understanding of severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2), virus–host interactions, immune …

Protein structure prediction: challenges, advances, and the shift of research paradigms

B Huang, L Kong, C Wang, F Ju… - Genomics …, 2023 - academic.oup.com
Protein structure prediction is an interdisciplinary research topic that has attracted
researchers from multiple fields, including biochemistry, medicine, physics, mathematics …

Cross-linking mass spectrometry for mapping protein complex topologies in situ

K Lee, FJ O'Reilly - Essays in Biochemistry, 2023 - portlandpress.com
Cross-linking mass spectrometry has become an established technology to provide
structural information on the topology and dynamics of protein complexes. Readily …

New advances in cross-linking mass spectrometry toward structural systems biology

C Yu, L Huang - Current opinion in chemical biology, 2023 - Elsevier
Elucidating protein–protein interaction (PPI) networks and their structural features within
cells is central to understanding fundamental biology and associations of cell phenotypes …

Label-free visual proteomics: Coupling MS-and EM-based approaches in structural biology

O Klykov, M Kopylov, B Carragher, AJR Heck, AJ Noble… - Molecular cell, 2022 - cell.com
Combining diverse experimental structural and interactomic methods allows for the
construction of comprehensible molecular encyclopedias of biological systems. Typically …

Present impact of AlphaFold2 revolution on structural biology, and an illustration with the structure prediction of the bacteriophage J-1 host adhesion device

A Goulet, C Cambillau - Frontiers in Molecular Biosciences, 2022 - frontiersin.org
In 2021, the release of AlphaFold2-the DeepMind's machine-learning protein structure
prediction program-revolutionized structural biology. Results of the CASP14 contest were an …

All domains of SARS-CoV-2 nsp1 determine translational shutoff and cytotoxicity of the protein

I Frolov, T Agback, O Palchevska, F Dominguez… - Journal of …, 2023 - Am Soc Microbiol
Replication of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) strongly
affects cellular metabolism and results in rapid development of the cytopathic effect (CPE) …

In-cell labeling and mass spectrometry for systems-level structural biology

JD Chavez, HH Wippel, X Tang, A Keller… - Chemical …, 2021 - ACS Publications
Biological systems have evolved to utilize proteins to accomplish nearly all functional roles
needed to sustain life. A majority of biological functions occur within the crowded …