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Computational approaches to predict protein–protein interactions in crowded cellular environments
Investigating protein–protein interactions is crucial for understanding cellular biological
processes because proteins often function within molecular complexes rather than in …
processes because proteins often function within molecular complexes rather than in …
Is target-based drug discovery efficient? Discovery and “off-target” mechanisms of all drugs
A Sadri - Journal of medicinal chemistry, 2023 - ACS Publications
Target-based drug discovery is the dominant paradigm of drug discovery; however, a
comprehensive evaluation of its real-world efficiency is lacking. Here, a manual systematic …
comprehensive evaluation of its real-world efficiency is lacking. Here, a manual systematic …
Macromolecular crowding in vitro, in vivo, and in between
Biochemical processes take place in heterogeneous and highly volume-occupied or
crowded environments that can considerably influence the reactivity and distribution of …
crowded environments that can considerably influence the reactivity and distribution of …
Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs)
It has long been axiomatic that a protein's structure determines its function. Intrinsically
disordered proteins (IDPs) and disordered protein regions (IDRs) defy this structure …
disordered proteins (IDPs) and disordered protein regions (IDRs) defy this structure …
Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences
Expected and observed effects of volume exclusion on the free energy of rigid and flexible
macromolecules in crowded and confined systems, and consequent effects of crowding and …
macromolecules in crowded and confined systems, and consequent effects of crowding and …
Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm
A longstanding question in molecular biology is the extent to which the behavior of
macromolecules observed in vitro accurately reflects their behavior in vivo. A number of …
macromolecules observed in vitro accurately reflects their behavior in vivo. A number of …
Protein organic chemistry and applications for labeling and engineering in live‐cell systems
The modification of proteins with synthetic probes is a powerful means of elucidating and
engineering the functions of proteins both in vitro and in live cells or in vivo. Herein we …
engineering the functions of proteins both in vitro and in live cells or in vivo. Herein we …
Thermodynamics of protein destabilization in live cells
Although protein folding and stability have been well explored under simplified conditions in
vitro, it is yet unclear how these basic self-organization events are modulated by the …
vitro, it is yet unclear how these basic self-organization events are modulated by the …
Soft interactions and crowding
The intracellular milieu is complex, heterogeneous and crowded—an environment vastly
different from dilute solutions in which most biophysical studies are performed. The crowded …
different from dilute solutions in which most biophysical studies are performed. The crowded …
Quinary structure modulates protein stability in cells
WB Monteith, RD Cohen, AE Smith… - Proceedings of the …, 2015 - pnas.org
Protein quinary interactions organize the cellular interior and its metabolism. Although the
interactions stabilizing secondary, tertiary, and quaternary protein structure are well defined …
interactions stabilizing secondary, tertiary, and quaternary protein structure are well defined …