Predicting Molecular Crowding Effects in Ion–RNA Interactions
نویسندگان
چکیده
منابع مشابه
Predicting polymer nanofiber interactions via molecular simulations.
Physical and functional properties of nonwoven textiles and other fiberlike materials depend strongly on the number and type of fiber-fiber interactions. For nanoscale polymeric fibers in particular, these interactions are governed by the surfaces of and contacts between fibers. We employ both molecular dynamics (MD) simulations at a temperature below the glass transition temperature T(g) of th...
متن کاملCrowding Effects in Vehicular Traffic
While the impact of crowding on the diffusive transport of molecules within a cell is widely studied in biology, it has thus far been neglected in traffic systems where bulk behavior is the main concern. Here, we study the effects of crowding due to car density and driving fluctuations on the transport of vehicles. Using a microscopic model for traffic, we found that crowding can push car movem...
متن کاملPredicting indirect readout effects in protein-DNA interactions.
Recognition of DNA by proteins relies on direct interactions with specific DNA-functional groups, along with indirect effects that reflect variable energetics in the response of DNA sequences to twisting and bending distortions induced by proteins. Predicting indirect readout requires knowledge of the variations in DNA curvature and flexibility in the affected region, which we have determined f...
متن کاملCrowding, intermolecular interactions, and shear flow effects in the diffusion model of chemical reactions.
In the diffusion model of chemical reactions, the encounter (reaction) rate between reactant particles is governed by the Smoluchowski equation, which is a diffusion equation in a field of forces. We consider crowded environments where the particles diffuse through a "liquid" of like particles. Assuming that the liquid-like short-range structure around the reactant gives rise to an effective (o...
متن کاملCrowding effects promote coexistence in the chemostat∗
This paper deals with an almost-global stability result for a particular chemostat model. It deviates from the classical chemostat because crowding effects are taken into consideration. This model can be rewritten as a negative feedback interconnection of two systems which are monotone (as input-output systems). Moreover, these subsystems behave nicely when subject to constant inputs. This allo...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: The Journal of Physical Chemistry B
سال: 2016
ISSN: 1520-6106,1520-5207
DOI: 10.1021/acs.jpcb.6b05625