We show that activated collagenase (MMP-1) moves processively on the collagen fibril. The mechanism of movement is a biased diffusion with the bias component dependent on the proteolysis of its substrate, not adenosine triphosphate (ATP) hydrolysis. Inactivation of the enzyme by a single amino acid residue substitution in the active center eliminates the bias without noticeable effect on rate of diffusion. Monte Carlo simulations using a model similar to a "burnt bridge" Brownian ratchet accurately describe our experimental results and previous observations on kinetics of collagen digestion. The biological implications of MMP-1 acting as a molecular ratchet tethered to the cell surface suggest new mechanisms for its role in tissue remodeling and cell-matrix interaction.
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Phys Rev Lett
December 2024
Chan Zuckerberg Biohub-San Francisco, 499 Illinois Street, San Francisco, California 94158, USA.
Influenza A viruses (IAVs) must navigate through a dense extracellular mucus to infect airway epithelial cells. The mucous layer, composed of glycosylated biopolymers (mucins), presents sialic acid that binds to ligands on the viral envelope and can be irreversibly cleaved by viral enzymes. It was recently discovered that filamentous IAVs exhibit directed persistent motion along their long axis on sialic acid-coated surfaces.
View Article and Find Full Text PDFPhys Rev E
November 2024
West Los Angeles College, Science Division, 9000 Overland Ave, Culver City, California 90230, USA.
The thermodynamic relations for a Brownian particle moving in a discrete ratchet potential coupled with quadratically decreasing temperature are explored as a function of time. We show that this thermal arrangement leads to a higher velocity (lower efficiency) compared to a Brownian particle operating between hot and cold baths, and a heat bath where the temperature linearly decreases along with the reaction coordinate. The results obtained in this study indicate that if the goal is to design a fast-moving motor, the quadratic thermal arrangement is more advantageous than the other two thermal arrangements.
View Article and Find Full Text PDFBiophys J
January 2025
Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan; Frontier Research Institute for Interdisciplinary Sciences (FRIS), Tohoku University, Aramaki-Aoba 6-3, Sendai, Miyagi, Japan. Electronic address:
Most kinesin molecular motors dimerize to move processively and efficiently along microtubules; however, some can maintain processivity even in a monomeric state. Previous studies have suggested that asymmetric potentials between the motor domain and microtubules underlie this motility. In this study, we demonstrate that the kinesin-3 family motor protein KLP-6 can move forward along microtubules as a monomer upon release of autoinhibition.
View Article and Find Full Text PDFPhys Rev E
September 2024
School of Physics and Astronomy, Beijing Normal University, Beijing 100875, China.
Microscopic particle separation plays a vital role in various scientific and industrial domains. Conventional separation methods relying on external forces or physical barriers inherently exhibit limitations in terms of efficiency, selectivity, and adaptability across diverse particle types. To overcome these limitations, researchers are constantly exploring new separation approaches, among which ratchet-based separation is a noteworthy method.
View Article and Find Full Text PDFNat Commun
October 2024
Department of Inorganic and Analytical Chemistry, Chemistry and Biochemistry, University of Geneva, Geneva, 1211, Switzerland.
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