Cover Image

Nonequilibrium protein complexes as molecular automata

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Kocka, Jan, Husain, Kabir, Agudo-Canalejo, Jaime
Format:	Preprint
Published:	2025
Subjects:	Biological Physics Statistical Mechanics Biomolecules
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

Structured Random Binding: a minimal model of protein-protein interactions
by: Zou, Ling-Nan
Published: (2025)

ATP-Dependent Mismatch Recognition in DNA Replication Mismatch Repair
by: Zhang, Nianqin, et al.
Published: (2022)

Nonlinear response theory of molecular machines
by: Chatzittofi, Michalis, et al.
Published: (2024)

Thermodynamic inference of correlations in nonequilibrium collective dynamics
by: Chatzittofi, Michalis, et al.
Published: (2024)

The Demon Hidden Behind Life's Ultra-Energy-Efficient Information Processing -- Demonstrated by Biological Molecular Motors
by: Yanagida, Toshio, et al.
Published: (2025)

Target search on DNA -- effect of coiling
by: Lomholt, Michael A., et al.
Published: (2023)

Entropic tug of war: Topological constraints spontaneously rectify the dynamics of a polymer with heterogeneous fluctuations
by: Höfler, Adam H. T. P., et al.
Published: (2024)

Diffusion of intrinsically disordered proteins within viscoelastic membraneless droplets
by: Watanabe, Fuga, et al.
Published: (2024)

Compression-induced continuous phase transition in the buckling of a semiflexible filament for two and three dimensions
by: Mondal, Ananya, et al.
Published: (2022)

Scaling Laws and Paradoxical Metastable States in Nanofilament Entropic Separation
by: Vilar, Jose M. G., et al.
Published: (2026)

Field-extension statistics of charged semiflexible polymers stretched with uniform electric fields
by: Mondal, Ananya, et al.
Published: (2024)

Topological phases in discrete stochastic systems
by: Agudo-Canalejo, Jaime, et al.
Published: (2024)

Entropy production and thermodynamic inference for stochastic microswimmers
by: Chatzittofi, Michalis, et al.
Published: (2023)

Actively induced supercoiling can slow down plasmid solutions by trapping the threading entanglements
by: Staňo, Roman, et al.
Published: (2025)

Discrete-space and -time analogue of a super-diffusive fractional Brownian motion
by: Marinari, Enzo, et al.
Published: (2025)

Constrained hidden Markov models reveal further Hsp90 protein states
by: Tancredi, Riccardo, et al.
Published: (2024)

Mechanistic rules for de novo design of enzymes
by: Chatzittofi, Michalis, et al.
Published: (2024)

Learning conformational ensembles of proteins based on backbone geometry
by: Wolf, Nicolas, et al.
Published: (2025)

Topological edge currents promote exploratory chromosome capture in microtubule dynamic instability
by: Zheng, Chongbin, et al.
Published: (2025)

Carbonic anhydrase II simulated with a universal neural network potential
by: Duignan, Timothy T.
Published: (2025)

Enzymatic Mpemba Effect: Slowing of biochemical reactions by increasing enzyme concentration
by: Hatakeyama, Tetsuhiro S.
Published: (2024)

Learning protein-ligand unbinding pathways via single-parameter community detection
by: Tänzel, Victor, et al.
Published: (2024)

The fitness landscape of overlapping genes
by: Kirsch, Orson, et al.
Published: (2026)

Mechanisms of DNA-mediated allostery
by: Segers, Midas, et al.
Published: (2023)

Interpretable machine learning of amino acid patterns in proteins: a statistical ensemble approach
by: Braghetto, Anna, et al.
Published: (2023)

Determining the optimal structural resolution of proteins through an information-theoretic analysis of their conformational ensemble
by: Mele, Margherita, et al.
Published: (2023)

Nonequilibrium relaxation inequality on short timescales
by: Auconi, Andrea
Published: (2024)

Nonequilibrium Theory for Molecular Machine Design
by: Yang, Ying-Jen, et al.
Published: (2026)

Fluctuation-Response Design Rules for Nonequilibrium Flows
by: Yang, Ying-Jen, et al.
Published: (2026)

Nonlinear Response Identities and Bounds for Nonequilibrium Steady States
by: Bao, Ruicheng, et al.
Published: (2024)

A unified framework for coarse grained molecular dynamics of proteins with high-fidelity reconstruction
by: Zhu, Jinzhen
Published: (2024)

Applied causality to infer protein dynamics and kinetics
by: Aranganathan, Akashnathan, et al.
Published: (2025)

Measuring irreversibility in stochastic systems by categorizing single-molecule displacements
by: Lanza, Alvaro, et al.
Published: (2025)

Stochastic dynamics and ribosome-RNAP interactions in Transcription-Translation Coupling
by: Li, Xiangting, et al.
Published: (2022)

Boltzmann Machine Learning with a Parallel, Persistent Markov chain Monte Carlo method for Estimating Evolutionary Fields and Couplings from a Protein Multiple Sequence Alignment
by: Miyazawa, Sanzo
Published: (2026)

Clustering Molecular Energy Landscapes by Adaptive Network Embedding
by: Mercurio, Paula, et al.
Published: (2024)

Limits on Inferring T-cell Specificity from Partial Information
by: Henderson, James, et al.
Published: (2024)

The onset of molecule-spanning dynamics in a multi-domain protein
by: Sohmen, Benedikt, et al.
Published: (2021)

Hairygami: Analysis of DNA Nanostructures' Conformational Change Driven by Functionalizable Overhangs
by: Sample, Matthew, et al.
Published: (2023)

Identifying the minimal sets of distance restraints for FRET-assisted protein structural modeling
by: Liu, Zhuoyi, et al.
Published: (2024)