Critical assessment of methods of protein structure prediction (CASP)—Round XIII

A Kryshtafovych, T Schwede, M Topf… - Proteins: Structure …, 2019 - Wiley Online Library
CASP (critical assessment of structure prediction) assesses the state of the art in modeling
protein structure from amino acid sequence. The most recent experiment (CASP13 held in …

Pragmatic coarse-graining of proteins: models and applications

L Borges-Araújo, I Patmanidis, AP Singh… - Journal of Chemical …, 2023 - ACS Publications
The molecular details involved in the folding, dynamics, organization, and interaction of
proteins with other molecules are often difficult to assess by experimental techniques …

Protein structure prediction with in-cell photo-crosslinking mass spectrometry and deep learning

K Stahl, A Graziadei, T Dau, O Brock… - Nature …, 2023 - nature.com
While AlphaFold2 can predict accurate protein structures from the primary sequence,
challenges remain for proteins that undergo conformational changes or for which few …

Critical assessment of methods of protein structure prediction (CASP)—Round XIV

A Kryshtafovych, T Schwede, M Topf… - Proteins: Structure …, 2021 - Wiley Online Library
Critical assessment of structure prediction (CASP) is a community experiment to advance
methods of computing three‐dimensional protein structure from amino acid sequence. Core …

[HTML][HTML] Anatomy of a crosslinker

A Belsom, J Rappsilber - Current opinion in chemical biology, 2021 - Elsevier
Crosslinking mass spectrometry has become a core technology in structural biology and is
expanding its reach towards systems biology. Its appeal lies in a rapid workflow, high …

Advances in integrative structural biology: Towards understanding protein complexes in their cellular context

SJ Ziegler, SJB Mallinson, PCS John… - Computational and …, 2021 - Elsevier
Microorganisms rely on protein interactions to transmit signals, react to stimuli, and grow.
One of the best ways to understand these protein interactions is through structural …

Protein footprinting: Auxiliary engine to power the structural biology revolution

MR Chance, ER Farquhar, S Yang, DT Lodowski… - Journal of molecular …, 2020 - Elsevier
Structural biology is entering an exciting time where many new high-resolution structures of
large complexes and membrane proteins are determined regularly. These advances have …

Assessment of protein assembly prediction in CASP13

D Guzenko, A Lafita, B Monastyrskyy… - Proteins: Structure …, 2019 - Wiley Online Library
We present the assembly category assessment in the 13th edition of the CASP community‐
wide experiment. For the second time, protein assemblies constitute an independent …

Hybrid computational methods combining experimental information with molecular dynamics

A Mondal, S Lenz, JL MacCallum, A Perez - Current Opinion in Structural …, 2023 - Elsevier
A goal of structural biology is to understand how macromolecules carry out their biological
roles by identifying their metastable states, mechanisms of action, pathways leading to …

[HTML][HTML] Integrative/hybrid modeling approaches for studying biomolecules

A Srivastava, SP Tiwari, O Miyashita, F Tama - Journal of molecular biology, 2020 - Elsevier
The structural and dynamical characterization of biomolecules holds central importance in
the endeavor to understand the molecular mechanisms regulating living systems. However …