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 …

Engineering self-assembling protein nanoparticles for therapeutic delivery

A Olshefsky, C Richardson, SH Pun… - Bioconjugate …, 2022‏ - ACS Publications
Despite remarkable advances over the past several decades, many therapeutic
nanomaterials fail to overcome major in vivo delivery barriers. Controlling immunogenicity …

Hallucinating symmetric protein assemblies

BIM Wicky, LF Milles, A Courbet, RJ Ragotte… - Science, 2022‏ - science.org
Deep learning generative approaches provide an opportunity to broadly explore protein
structure space beyond the sequences and structures of natural proteins. Here, we use deep …

Designed proteins assemble antibodies into modular nanocages

R Divine, HV Dang, G Ueda, JA Fallas, I Vulovic… - Science, 2021‏ - science.org
INTRODUCTION Antibodies that bind tightly to targets of interest play central roles in
biological research and medicine. Clusters of antibodies, typically generated by fusing …

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

R Castells-Graells, K Meador, MA Arbing… - Proceedings of the …, 2023‏ - pnas.org
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 …

Reconfigurable asymmetric protein assemblies through implicit negative design

DD Sahtoe, F Praetorius, A Courbet, Y Hsia, BIM Wicky… - Science, 2022‏ - science.org
Asymmetric multiprotein complexes that undergo subunit exchange play central roles in
biology but present a challenge for design because the components must not only contain …

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

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

De novo design of obligate ABC-type heterotrimeric proteins

S Bermeo, A Favor, YT Chang, A Norris… - Nature Structural & …, 2022‏ - nature.com
The de novo design of three protein chains that associate to form a heterotrimer (but not any
of the possible two-chain heterodimers) and that can drive the assembly of higher-order …

[HTML][HTML] Putting on molecular weight: Enabling cryo-EM structure determination of sub-100-kDa proteins

K Wentinck, C Gogou, DH Meijer - Current Research in Structural Biology, 2022‏ - Elsevier
Significant advances in the past decade have enabled high-resolution structure
determination of a vast variety of proteins by cryogenic electron microscopy single particle …

Antigen spacing on protein nanoparticles influences antibody responses to vaccination

D Ellis, A Dosey, S Boyoglu-Barnum, YJ Park… - Cell reports, 2023‏ - cell.com
Immunogen design approaches aim to control the specificity and quality of antibody
responses elicited by next-generation vaccines. Here, we use computational protein design …