Protein design: From the aspect of water solubility and stability

R Qing, S Hao, E Smorodina, D **, A Zalevsky… - Chemical …, 2022 - ACS Publications
Water solubility and structural stability are key merits for proteins defined by the primary
sequence and 3D-conformation. Their manipulation represents important aspects of the …

[HTML][HTML] Advances in protein structure prediction and design

B Kuhlman, P Bradley - Nature reviews molecular cell biology, 2019 - nature.com
The prediction of protein three-dimensional structure from amino acid sequence has been a
grand challenge problem in computational biophysics for decades, owing to its intrinsic …

Protein cages: from fundamentals to advanced applications

TGW Edwardson, MD Levasseur, S Tetter… - Chemical …, 2022 - ACS Publications
Proteins that self-assemble into polyhedral shell-like structures are useful molecular
containers both in nature and in the laboratory. Here we review efforts to repurpose diverse …

Challenges and opportunities in cryo-EM single-particle analysis

D Lyumkis - Journal of Biological Chemistry, 2019 - ASBMB
Cryogenic electron microscopy (cryo-EM) enables structure determination of
macromolecular objects and their assemblies. Although the techniques have been …

Cryo-EM in drug discovery: achievements, limitations and prospects

JP Renaud, A Chari, C Ciferri, W Liu… - Nature reviews Drug …, 2018 - nature.com
Cryo-electron microscopy (cryo-EM) of non-crystalline single particles is a biophysical
technique that can be used to determine the structure of biological macromolecules and …

Cryo-EM structure determination of small therapeutic protein targets at 3 Å-resolution using a rigid imaging scaffold

R Castells-Graells, K Meador… - Proceedings of the …, 2023 - National Acad Sciences
Cryoelectron microscopy (Cryo-EM) has enabled structural determination of proteins larger
than about 50 kDa, including many intractable by any other method, but it has largely failed …

Protein-based antigen presentation platforms for nanoparticle vaccines

B Nguyen, NH Tolia - npj Vaccines, 2021 - nature.com
Modern vaccine design has sought a minimalization approach, moving to the isolation of
antigens from pathogens that invoke a strong neutralizing immune response. This approach …

Rapid and automated design of two-component protein nanomaterials using ProteinMPNN

RJ de Haas, N Brunette, A Goodson… - Proceedings of the …, 2024 - National Acad Sciences
The design of protein–protein interfaces using physics-based design methods such as
Rosetta requires substantial computational resources and manual refinement by expert …

Structural conservation among variants of the SARS-CoV-2 spike postfusion bundle

K Yang, C Wang, KI White… - Proceedings of the …, 2022 - National Acad Sciences
Variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) challenge
currently available COVID-19 vaccines and monoclonal antibody therapies due to structural …

Hierarchical design of pseudosymmetric protein nanocages

QM Dowling, YJ Park, CN Fries, NC Gerstenmaier… - Nature, 2024 - nature.com
Discrete protein assemblies ranging from hundreds of kilodaltons to hundreds of
megadaltons in size are a ubiquitous feature of biological systems and perform highly …