Advances in antibody design

KE Tiller, PM Tessier - Annual review of biomedical engineering, 2015 - annualreviews.org
The use of monoclonal antibodies as therapeutics requires optimizing several of their key
attributes. These include binding affinity and specificity, folding stability, solubility …

Theory, practice, and applications of paramagnetic relaxation enhancement for the characterization of transient low-population states of biological macromolecules …

GM Clore, J Iwahara - Chemical reviews, 2009 - ACS Publications
Understanding the function of biological macromolecules and their complexes at the
physicochemical level requires knowledge of both their structure and dynamics …

SARS-CoV-2 spike L452R variant evades cellular immunity and increases infectivity

C Motozono, M Toyoda, J Zahradnik, A Saito… - Cell host & …, 2021 - cell.com
Many SARS-CoV-2 variants with naturally acquired mutations have emerged. These
mutations can affect viral properties such as infectivity and immune resistance. Although the …

SARS-CoV-2 variant prediction and antiviral drug design are enabled by RBD in vitro evolution

J Zahradník, S Marciano, M Shemesh, E Zoler… - Nature …, 2021 - nature.com
SARS-CoV-2 variants of interest and concern will continue to emerge for the duration of the
COVID-19 pandemic. To map mutations in the receptor-binding domain (RBD) of the spike …

The FoldX web server: an online force field

J Schymkowitz, J Borg, F Stricher, R Nys… - Nucleic acids …, 2005 - academic.oup.com
FoldX is an empirical force field that was developed for the rapid evaluation of the effect of
mutations on the stability, folding and dynamics of proteins and nucleic acids. The core …

Insights into protein–protein binding by binding free energy calculation and free energy decomposition for the Ras–Raf and Ras–RalGDS complexes

H Gohlke, C Kiel, DA Case - Journal of molecular biology, 2003 - Elsevier
Absolute binding free energy calculations and free energy decompositions are presented for
the protein–protein complexes H-Ras/C-Raf1 and H-Ras/RalGDS. Ras is a central switch in …

SARS-CoV-2 RBD in vitro evolution follows contagious mutation spread, yet generates an able infection inhibitor

J Zahradník, S Marciano, M Shemesh, E Zoler… - BioRxiv, 2021 - biorxiv.org
SARS-CoV-2 is continually evolving, with more contagious mutations spreading rapidly.
Using in vitro evolution to affinity maturate the receptor-binding domain (RBD) of the spike …

Protein–polyelectrolyte interactions

AB Kayitmazer, D Seeman, BB Minsky, PL Dubin, Y Xu - Soft Matter, 2013 - pubs.rsc.org
The interactions of proteins and polyelectrolytes lead to diverse applications in separations,
delivery and wound repair, and are thus of interest to scientists in eg (a) glycobiology,(b) …

Fundamental aspects of protein− protein association kinetics

G Schreiber, G Haran, HX Zhou - Chemical reviews, 2009 - ACS Publications
The structure of a protein complex together with information about its affinity and other
thermodynamic characteristics provide a “frozen” view of the complex. This picture ignores …

Polyelectrolyte–protein complexes

CL Cooper, PL Dubin, AB Kayitmazer… - Current opinion in colloid …, 2005 - Elsevier
The field of polyelectrolye–protein complexes is now benefiting from the convergence of
three themes whose disciplinary distinctions formerly produced fragmentation. Theory and …