The role of protein conformational fluctuations in allostery, function, and evolution
JO Wrabl, J Gu, T Liu, TP Schrank, ST Whitten… - Biophysical …, 2011 - Elsevier
It is now well-known that proteins exist at equilibrium as ensembles of conformational states
rather than as unique static structures. Here we review from an ensemble perspective …
rather than as unique static structures. Here we review from an ensemble perspective …
Molecular crowding enhances native structure and stability of α/β protein flavodoxin
To investigate the consequences of macromolecular crowding on the behavior of a globular
protein, we performed a combined experimental and computational study on the 148 …
protein, we performed a combined experimental and computational study on the 148 …
Computational structure prediction for antibody-antigen complexes from hydrogen-deuterium exchange mass spectrometry: Challenges and outlook
Although computational structure prediction has had great successes in recent years, it
regularly fails to predict the interactions of large protein complexes with residue-level …
regularly fails to predict the interactions of large protein complexes with residue-level …
Protein hydrogen exchange: Testing current models
To investigate the determinants of protein hydrogen exchange (HX), HX rates of most of the
backbone amide hydrogens of Staphylococcal nuclease were measured by NMR methods …
backbone amide hydrogens of Staphylococcal nuclease were measured by NMR methods …
Region-directed enzyme immobilization through engineering protein surface with histidine clusters
N Zeballos, N Comino, D Andrés-Sanz… - … Applied Materials & …, 2023 - ACS Publications
Enzyme immobilization is a key enabling technology for a myriad of industrial applications,
yet immobilization science is still too empirical to reach highly active and robust …
yet immobilization science is still too empirical to reach highly active and robust …
[HTML][HTML] A cell-free antigen processing system informs HIV-1 epitope selection and vaccine design
S Sengupta, J Zhang, MC Reed, J Yu, A Kim… - Journal of Experimental …, 2023 - rupress.org
Distinct CD4+ T cell epitopes have been associated with spontaneous control of HIV-1
replication, but analysis of antigen-dependent factors that influence epitope selection is …
replication, but analysis of antigen-dependent factors that influence epitope selection is …
Design of protein switches based on an ensemble model of allostery
JH Choi, AH Laurent, VJ Hilser, M Ostermeier - Nature communications, 2015 - nature.com
Switchable proteins that can be regulated through exogenous or endogenous inputs have a
broad range of biotechnological and biomedical applications. Here we describe the design …
broad range of biotechnological and biomedical applications. Here we describe the design …
Allosteric communication across the native and mutated KIT receptor tyrosine kinase
A fundamental goal in cellular signaling is to understand allosteric communication, the
process by which signals originated at one site in a protein propagate dependably to affect …
process by which signals originated at one site in a protein propagate dependably to affect …
Structure of phenylalanine hydroxylase from Colwellia psychrerythraea 34H, a monomeric cold active enzyme with local flexibility around the active site and high …
The characteristic of cold-adapted enzymes, high catalytic efficiency at low temperatures, is
often associated with low thermostability and high flexibility. In this context, we analyzed the …
often associated with low thermostability and high flexibility. In this context, we analyzed the …
On the roles of substrate binding and hinge unfolding in conformational changes of adenylate kinase
JB Brokaw, JW Chu - Biophysical Journal, 2010 - cell.com
We characterized the conformational change of adenylate kinase (AK) between open and
closed forms by conducting five all-atom molecular-dynamics simulations, each of 100 ns …
closed forms by conducting five all-atom molecular-dynamics simulations, each of 100 ns …