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1.
J Phys Condens Matter ; 36(40)2024 Jul 05.
Artículo en Inglés | MEDLINE | ID: mdl-38936395

RESUMEN

The mechanism behind mutual recognition of homologous DNA sequences prior to genetic recombination is one of the remaining puzzles in molecular biology. Leading models of homology recognition, based on classical electrostatics, neglect the short-range nonlocal screening effects arising from structured water around DNA, and hence may only provide insight for relatively large separations between interacting DNAs. We elucidate the role of the effects of the nonlocal dielectric response of water on DNA-DNA interaction and show that these can dramatically enhance the driving force for recognition.


Asunto(s)
ADN , Agua , ADN/química , Agua/química , Conformación de Ácido Nucleico , Electricidad Estática , Modelos Moleculares , Homología de Secuencia de Ácido Nucleico
2.
Cell Discov ; 10(1): 62, 2024 Jun 11.
Artículo en Inglés | MEDLINE | ID: mdl-38862506

RESUMEN

Membrane budding, which underlies fundamental processes like endocytosis, intracellular trafficking, and viral infection, is thought to involve membrane coat-forming proteins, including the most observed clathrin, to form Ω-shape profiles and helix-forming proteins like dynamin to constrict Ω-profiles' pores and thus mediate fission. Challenging this fundamental concept, we report that polymerized clathrin is required for Ω-profiles' pore closure and that clathrin around Ω-profiles' base/pore region mediates pore constriction/closure in neuroendocrine chromaffin cells. Mathematical modeling suggests that clathrin polymerization at Ω-profiles' base/pore region generates forces from its intrinsically curved shape to constrict/close the pore. This new fission function may exert broader impacts than clathrin's well-known coat-forming function during clathrin (coat)-dependent endocytosis, because it underlies not only clathrin (coat)-dependent endocytosis, but also diverse endocytic modes, including ultrafast, fast, slow, bulk, and overshoot endocytosis previously considered clathrin (coat)-independent in chromaffin cells. It mediates kiss-and-run fusion (fusion pore closure) previously considered bona fide clathrin-independent, and limits the vesicular content release rate. Furthermore, analogous to results in chromaffin cells, we found that clathrin is essential for fast and slow endocytosis at hippocampal synapses where clathrin was previously considered dispensable, suggesting clathrin in mediating synaptic vesicle endocytosis and fission. These results suggest that clathrin and likely other intrinsically curved coat proteins are a new class of fission proteins underlying vesicle budding and fusion. The half-a-century concept and studies that attribute vesicle-coat contents' function to Ω-profile formation and classify budding as coat-protein (e.g., clathrin)-dependent or -independent may need to be re-defined and re-examined by considering clathrin's pivotal role in pore constriction/closure.

4.
Faraday Discuss ; 246(0): 251-273, 2023 Oct 12.
Artículo en Inglés | MEDLINE | ID: mdl-37501536

RESUMEN

In the midst of an ongoing energy crisis, the search for new methods of energy harvesting has never been more important. Here we explore, analyse and discuss principles of ionotronic reverse-actuator devices based on the effect of double-layer charging. The designs that we consider in this paper operate based on a common principle - using external mechanical work, which would otherwise be wasted, to produce changes in the contact area of electrode and electrolyte, translated into the time variation of the double-layer capacitance. Periodic variation of capacitance, when connected to a reference voltage source, produces alternating electric current through a load. This concept is not new and in some forms was realised in the early works of Boland, Krupenkin and several papers of our group. The goal of the present paper is to build a comprehensive analytical platform for a description of operation of such devices in terms of materials, generated power as a function of the frequency of variation of applied force, electrical load, and other factors; the understanding of which allows us to optimise these systems and navigate their construction. The first design, discussed in the paper, is based on flat electrodes. It is the simplest one and, as such, helps elucidate some key factors determining power generation. While being easy to realise experimentally, it generates relatively low power, even when optimised. The second design, based on microporous electrodes is more sophisticated and allows a much larger power harvest. The results are also compared to the recently proposed capacitive rotor device. The developed theory is set to capture the key factors that determine the functioning of the considered reverse actuators. The structures under study are matched to fit into the sole of a shoe and produce power from walking and running. However, they can also be scaled-up to larger operating systems and various external loads.

6.
Sci Rep ; 12(1): 16, 2022 01 07.
Artículo en Inglés | MEDLINE | ID: mdl-34996899

RESUMEN

Networks, whose junctions are free to move along the edges, such as two-dimensional soap froths and membrane tubular networks of endoplasmic reticulum are intrinsically unstable. This instability is a result of a positive tension applied to the network elements. A paradigm of networks exhibiting stable polygonal configurations in spite of the junction mobility, are networks formed by bundles of Keratin Intermediate Filaments (KIFs) in live cells. A unique feature of KIF networks is a, hypothetically, negative tension generated in the network bundles due to an exchange of material between the network and an effective reservoir of unbundled filaments. Here we analyze the structure and stability of two-dimensional networks with mobile three-way junctions subject to negative tension. First, we analytically examine a simplified case of hexagonal networks with symmetric junctions and demonstrate that, indeed, a negative tension is mandatory for the network stability. Another factor contributing to the network stability is the junction elastic resistance to deviations from the symmetric state. We derive an equation for the optimal density of such networks resulting from an interplay between the tension and the junction energy. We describe a configurational degeneration of the optimal energy state of the network. Further, we analyze by numerical simulations the energy of randomly generated networks with, generally, asymmetric junctions, and demonstrate that the global minimum of the network energy corresponds to the irregular configurations.

7.
Nat Commun ; 12(1): 3678, 2021 Jun 16.
Artículo en Inglés | MEDLINE | ID: mdl-34135333

RESUMEN

Innovative concepts and materials are enabling energy harvesters for slower motion, particularly for personal wearables or portable small-scale applications, hence contributing to a future sustainable economy. Here we propose a principle for a capacitive rotor device and analyze its operation. This device is based on a rotor containing many capacitors in parallel. The rotation of the rotor causes periodic capacitance changes and, when connected to a reservoir-of-charge capacitor, induces alternating current. The properties of this device depend on the lubricating liquid situated between the capacitor's electrodes, be it a highly polar liquid, organic electrolyte, or ionic liquid - we consider all these scenarios. An advantage of the capacitive rotor is its scalability. Such a lightweight device, weighing tens of grams, can be implemented in a shoe sole, generating a significant power output of the order of Watts. Scaled up, such systems can be used in portable wind or water turbines.

8.
Mol Biol Cell ; 32(3): 301-310, 2021 02 01.
Artículo en Inglés | MEDLINE | ID: mdl-33263429

RESUMEN

Anionic phospholipids can confer a net negative charge on biological membranes. This surface charge generates an electric field that serves to recruit extrinsic cationic proteins, can alter the disposition of transmembrane proteins and causes the local accumulation of soluble counterions, altering the local pH and the concentration of physiologically important ions such as calcium. Because the phospholipid compositions of the different organellar membranes vary, their surface charges are similarly expected to diverge. Yet, despite the important functional implications, remarkably little is known about the electrostatic properties of the individual organellar membranes. We therefore designed and implemented approaches to estimate the surface charges of the cytosolic membranes of various organelles in situ in intact cells. Our data indicate that the inner leaflet of the plasma membrane is most negative, with a surface potential of approximately -35 mV, followed by the Golgi complex > lysosomes > mitochondria ≈ peroxisomes > endoplasmic reticulum, in decreasing order.


Asunto(s)
Membrana Celular/fisiología , Proteínas de la Membrana/metabolismo , Fosfolípidos/metabolismo , Animales , Membrana Celular/metabolismo , Retículo Endoplásmico/metabolismo , Lisosomas/metabolismo , Ratones , Mitocondrias/metabolismo , Fosfolípidos/fisiología , Células RAW 264.7 , Electricidad Estática
9.
Biophys J ; 119(1): 65-74, 2020 07 07.
Artículo en Inglés | MEDLINE | ID: mdl-32533940

RESUMEN

Keratin intermediate filaments form dynamic intracellular networks, which span the entire cytoplasm and provide mechanical strength to the cell. The mechanical resilience of the keratin intermediate filament network itself is determined by filament bundling. The bundling process can be reproduced in artificial conditions in the absence of any specific cross-linking proteins, which suggests that it is driven by generic physical forces acting between filaments. Here, we suggest a detailed model for bundling of keratin intermediate filaments based on interfilament electrostatic and hydrophobic interactions. It predicts that the process is limited by an optimal bundle thickness, which is determined by the electric charge of the filaments, the number of hydrophobic residues in the constituent keratin polypeptides, and the extent to which the electrolyte ions are excluded from the bundle interior. We evaluate the kinetics of the bundling process by considering the energy barrier a filament has to overcome for joining a bundle.


Asunto(s)
Filamentos Intermedios , Queratinas , Citoesqueleto/metabolismo , Filamentos Intermedios/metabolismo , Queratinas/metabolismo , Cinética , Electricidad Estática
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