Computer simulations of the bacterial ribosome using a general purpose coarse-grained model MARTINI
Fuente:
arXiv
Saved in:
| Main Authors: | Cikhart, Josef, Leskourová, Aneta, Kolář, Michal H. |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
Sensitivity of peptide conformational dynamics in carbon nanotubes to directional mechanical forces
by: Nepomuceno, Felipe C., et al.
Published: (2024)
by: Nepomuceno, Felipe C., et al.
Published: (2024)
Developing an unfolding-incorporated coarse-grained polymer model for fibrinogen to study the mechanical behaviour
by: Sharma, Vivek, et al.
Published: (2025)
by: Sharma, Vivek, et al.
Published: (2025)
Effective and efficient modeling of the hydrodynamics for bacterial flagella
by: Liu, Baopi, et al.
Published: (2024)
by: Liu, Baopi, et al.
Published: (2024)
Effect of local stress on accurate modeling of bacterial outer membranes using all-atom molecular dynamics
by: Pirhadi, Emad, et al.
Published: (2022)
by: Pirhadi, Emad, et al.
Published: (2022)
Relevance of the Computational Models of Bacterial Interactions in the simulation of Biofilm Growth
by: Santos-Díaz, Gabriel, et al.
Published: (2025)
by: Santos-Díaz, Gabriel, et al.
Published: (2025)
Modeling bacterial flow field with regularized singularities
by: Yang, Yaochen, et al.
Published: (2026)
by: Yang, Yaochen, et al.
Published: (2026)
The role of tumbling in bacterial scattering at convex obstacles
by: Jakuszeit, Theresa, et al.
Published: (2023)
by: Jakuszeit, Theresa, et al.
Published: (2023)
Modelling of thermosensitive stereoregular polymers within MARTINI coarse-grained force-field: poly(N-isopropylacrylamide) as a benchmark case
by: Muratov, Alexander D., et al.
Published: (2021)
by: Muratov, Alexander D., et al.
Published: (2021)
EXCOGITO, an extensible coarse-graining toolbox for the investigation of biomolecules by means of low-resolution representation
by: Giulini, Marco, et al.
Published: (2024)
by: Giulini, Marco, et al.
Published: (2024)
Giant enhancement of bacterial upstream swimming in macromolecular flows
by: Cao, Ding, et al.
Published: (2024)
by: Cao, Ding, et al.
Published: (2024)
Swimming patterns of a multi-mode bacterial swimmer in fluid shear flow
by: Muraveva, Valeriia, et al.
Published: (2025)
by: Muraveva, Valeriia, et al.
Published: (2025)
Physical mechanism reveals bacterial slowdown above a critical number of flagella
by: Tătulea-Codrean, Maria, et al.
Published: (2024)
by: Tătulea-Codrean, Maria, et al.
Published: (2024)
Lipidation-induced bacterial cell membrane translocation of star-peptides
by: Jayawardena, Amal, et al.
Published: (2025)
by: Jayawardena, Amal, et al.
Published: (2025)
Quantitative characterization of run-and-tumble statistics in bulk bacterial suspensions
by: Zhao, Yongfeng, et al.
Published: (2022)
by: Zhao, Yongfeng, et al.
Published: (2022)
Confinement inhibits surficial attachment and induces collective behaviors in bacterial colonies
by: Hickl, Vincent, et al.
Published: (2025)
by: Hickl, Vincent, et al.
Published: (2025)
Large-scale orientational order in bacterial colonies during inward growth
by: Başaran, Mustafa, et al.
Published: (2020)
by: Başaran, Mustafa, et al.
Published: (2020)
Nucleoid clustering drives stepwise expansion and segregation of replicating bacterial chromosomes
by: Forte, Giada, et al.
Published: (2026)
by: Forte, Giada, et al.
Published: (2026)
Emergence of large-scale mechanical spiral waves in bacterial living matter
by: Liu, Shiqi, et al.
Published: (2024)
by: Liu, Shiqi, et al.
Published: (2024)
Highly coarse-grained polarisable water models for mesoscopic simulations
by: Seaton, Michael A., et al.
Published: (2026)
by: Seaton, Michael A., et al.
Published: (2026)
Coarse-grained modelling of DNA-RNA hybrids
by: Ratajczyk, Eryk J., et al.
Published: (2023)
by: Ratajczyk, Eryk J., et al.
Published: (2023)
Coarse-graining dense, deformable active particles
by: Nejad, Mehrana R., et al.
Published: (2025)
by: Nejad, Mehrana R., et al.
Published: (2025)
DNA melting: intra base-pair dynamics and a vector generalization of the Peyrard-Bishop-Dauxois model
by: Theodorakopoulos, Nikos
Published: (2026)
by: Theodorakopoulos, Nikos
Published: (2026)
MARTINI Coarse-grained Force Field for Thermoplastic Starch Nanocomposites
by: Patidar, Ankit, et al.
Published: (2024)
by: Patidar, Ankit, et al.
Published: (2024)
Martignac: Computational workflows for reproducible, traceable, and composable coarse-grained Martini simulations
by: Bereau, Tristan, et al.
Published: (2024)
by: Bereau, Tristan, et al.
Published: (2024)
Physical Properties of Dextran Solutions as Model Crowding Media
by: Migliorini, Giuliano, et al.
Published: (2026)
by: Migliorini, Giuliano, et al.
Published: (2026)
Measuring irreversibility by counting: a random coarse-graining framework
by: Bao, Ruicheng, et al.
Published: (2025)
by: Bao, Ruicheng, et al.
Published: (2025)
Analysis of in-vivo skin anisotropy using elastic wave measurements and Bayesian modelling
by: Nagle, Matt, et al.
Published: (2025)
by: Nagle, Matt, et al.
Published: (2025)
Measurements of molecular size and shape on a chip
by: Zhu, Xin, et al.
Published: (2025)
by: Zhu, Xin, et al.
Published: (2025)
Quantifying surfactant adsorption at fluid interfaces by combining X-ray reflection and simulation
by: Dormann, Kay-Robert, et al.
Published: (2025)
by: Dormann, Kay-Robert, et al.
Published: (2025)
E. coli bacterium tumbling in bulk and close to surfaces: A simulation study
by: Martin, Pierre, et al.
Published: (2025)
by: Martin, Pierre, et al.
Published: (2025)
A tutorial for mesoscale computer simulations of lipid membranes: tether pulling, tubulation and fluctuation
by: Muñoz-Basagoiti, Maitane, et al.
Published: (2025)
by: Muñoz-Basagoiti, Maitane, et al.
Published: (2025)
Current rectification and ionic selectivity of alpha-hemolysin: Coarse-Grained Molecular Dynamics simulations
by: Dessaux, Delphine, et al.
Published: (2022)
by: Dessaux, Delphine, et al.
Published: (2022)
Mesoscopic modelling of bio-compatible PLGA polymers with coarse-grained molecular dynamics simulations
by: Bellussi, Francesco Maria, et al.
Published: (2024)
by: Bellussi, Francesco Maria, et al.
Published: (2024)
Many-Body Dissipative Particle Dynamics with the MARTINI "Lego" approach
by: Carnevale, Luis H., et al.
Published: (2023)
by: Carnevale, Luis H., et al.
Published: (2023)
Active bacterial pattern formation in evaporating droplets
by: Wilting, Twan J. S., et al.
Published: (2025)
by: Wilting, Twan J. S., et al.
Published: (2025)
Phase behaviour of semiflexible lattice polymers in poor-solvent solution: mean-field theory and Monte Carlo simulations
by: Marcato, Davide, et al.
Published: (2023)
by: Marcato, Davide, et al.
Published: (2023)
Diffusion of Tracer Particles in Early Growing Biofilms. A Computer Simulation Study
by: Daza, Fabian A. Garcia, et al.
Published: (2025)
by: Daza, Fabian A. Garcia, et al.
Published: (2025)
Phases, morphologies, and transitions in a membrane model for the endoplasmic reticulum
by: Alageshan, Jaya Kumar, et al.
Published: (2024)
by: Alageshan, Jaya Kumar, et al.
Published: (2024)
The oxDNA coarse-grained model as a tool to simulate DNA origami
by: Doye, Jonathan P. K., et al.
Published: (2020)
by: Doye, Jonathan P. K., et al.
Published: (2020)
Spindles and active vortices in a model of confined filament-motor mixtures
by: Head, David A., et al.
Published: (2011)
by: Head, David A., et al.
Published: (2011)
Similar Items
-
Sensitivity of peptide conformational dynamics in carbon nanotubes to directional mechanical forces
by: Nepomuceno, Felipe C., et al.
Published: (2024) -
Developing an unfolding-incorporated coarse-grained polymer model for fibrinogen to study the mechanical behaviour
by: Sharma, Vivek, et al.
Published: (2025) -
Effective and efficient modeling of the hydrodynamics for bacterial flagella
by: Liu, Baopi, et al.
Published: (2024) -
Effect of local stress on accurate modeling of bacterial outer membranes using all-atom molecular dynamics
by: Pirhadi, Emad, et al.
Published: (2022) -
Relevance of the Computational Models of Bacterial Interactions in the simulation of Biofilm Growth
by: Santos-Díaz, Gabriel, et al.
Published: (2025)