Feb 02 26
Featured Papers
Metabolites Shift Equilibria of Biomolecular Condensates
Matsuzawa, T.; Varma, K.; Bate, T.; Lorenz, C.; Larina, K.; Bauermann, J.; Matthias, D.; Grubic, T.; Style, R. W.; Steinmetz, M. O.; Dufresne, E. R.
Active Solids: Topological Defect Self-Propulsion Without Flow
Fridtjof Brauns, Myles O’Leary, Arthur Hernandez, Mark J. Bowick, and M. Cristina Marchetti
Huygens’ clocks at the microscale
Yaocheng Li, Ivan Palaia, Jinzi Mac Huang, Antoine Aubret, Jérémie Palacci
Injury-induced electrochemical coupling triggers organ growth
Jinghui Liu, Elisa Nerli, Charlie Duclut, Amit Singh Vishen, Naomi Berbée, Sylvia Kaufmann, Cesar Ponce, Aristides B. Arrenberg, Frank Jülicher, Rita Mateus
Model for Self-Organized Growth, Branching, and Allometric Scaling of the Planarian Gut
Christian Hanauer, Amrutha Palavalli, Baiqun An, Efe Ilker, Jochen C. Rink, and Frank Jülicher
Selective excitation of work-generating cycles in non-reciprocal living solids
Yu-Chen Chao, Shreyas Gokhale, Lisa Lin, Alasdair Hastewell, Alexandru Bacanu, Yuchao Chen, Junang Li, Jinghui Liu, Hyunseok Lee, Jörn Dunkel, Nikta Fakhri
More Papers
Carbon-phosphorus exchange rate constrains density-speed trade-off in arbuscular mycorrhizal fungal growth
Corentin Bisot, Loreto Oyarte Galvez, Félix Kahane, Marije van Son, Bianca Turcu, Rob Broekman, Kai-Kai Lin, Paco Bontenbal, Max Kerr Winter, Vasilis Kokkoris, Stuart A. West, Christophe Godin, E. Toby Kiers , and Thomas S. Shimizu
Reciprocal nutrient fluxes between host plants and their fungal partners govern the allocation of biomass between rapid exploratory expansion and dense exploitative branching.
Dynamical buffering of reconfiguration dynamics in intrinsically disordered proteins
Ivanovic, M. T.; Holla, A.; Nüesch, M. F.; von Roten, V.; Schuler, B.; Best, R. B.
Opposing changes in end-to-end distance distributions and intrachain diffusion coefficients balance one another to maintain consistent reconfiguration speeds despite sequence-dependent variations in chain compactness.
Learning millisecond protein dynamics from what is missing in NMR spectra
Wayment-Steele, H. K.; El Nesr, G.; Hettiarachchi, R.; Ojoawo, A. M.; Kariyawasam, H.; Ovchinnikov, S.; Kern, D.
Dyna-1 leverages unassigned residues in the Biological Magnetic Resonance Data Bank to identify functionally critical sites and evolutionary conservation across thousands of proteins.
Out-of-equilibrium selection pressure enhances inference from protein sequence data
Dietler, N.; Malbranke, C.; Bitbol, A.-F.
Fluctuations in selection strength and the onset of new selective forces provide informative signals that improve the identification of residue-residue contacts and protein interaction partners.
Non-equilibrium modeling of directed flux through biomolecular condensates
Wani, Y. M.; Joseph, J. A.
Sequence patterning and transient associative interactions regulate transport efficiency through a “handoff mechanism” and reptation dynamics, providing a framework for rationally tuning molecular movement in therapeutic and material design.
Hierarchical friction memory leads to subdiffusive configurational dynamics of fast-folding proteins
Anton Klimek, Benjamin A. Dalton, Lucas Tepper, Roland R. Netz
Analysis of molecular trajectories reveals that the standard assumption of memoryless friction in energy landscape models cannot accurately describe the complex temporal dependencies of amino acid motion.
Single-nanoparticle electrophoretic mobility determination and trapping using active-feedback 3D tracking
Johnson, A.; Welsher, K.
Maximum likelihood estimation of 3D-SMART data enables simultaneous size and charge measurements with sub-30 charge precision, facilitating nanoparticle characterization in live tissue and other complex environments without the need for microfluidic devices.
Tuning siRNA packing order in lipid nanoparticles modulates oligonucleotide functional delivery
Breuer, A.; Kyriakakis, G.; Dreisler, M. W.; Schulz, F. H.; Bolis, G.; Margaritaki, S.; Papageorgiou, V.; Spacho, N.; Hatzakis, N. S.
Less compact internal siRNA packing, characterized through single-particle imaging, promotes superior gene silencing potency compared to highly ordered particle structures.
Modeling IK1 current modulation by melatonin and luzindole: a benchmark for patch clamp studies
Safiulina, V. F.; Gonotkov, M.
Adjustments to maximum conductance values within an established rat cardiomyocyte model provide a computational reference for detecting signaling losses caused by cytoplasmic dialysis in patch-clamp experiments.
Formation of homolog pairing-induced domains in early Drosophila embryo genome
Liu, L.; Jin, Y.; Tao, Y.; Hyeon, C.
Specific adhesive interactions between homologous buttons at domain boundaries align cis and trans-homolog structures while leaving interior regions loosely associated.
Monte Carlo dosimetric characterization of the IRAsource high dose rate Iridium-192 brachytherapy source: Comparison with the mHDR-v2r model
Shuhei Tsuji
Differences in source capsule geometry result in 3% to 6% variations in the 2D anisotropy function, while the established dose rate constant of 1.1142 cGyh⁻¹U⁻¹ ensures reliable baseline data for clinical dose assessment.
Periodic confined cell migration drives partially reversible chromatin reorganization in cancer cell lines
Blazquez-Romero, Maria del Valle, Mendivil-Carboni, Marco, Sarasquete-Martinez, Maria, Sainz-Agost, Alejandro, Falo, Fernando, De Corato, Marco, Gomez-Benito, Maria Jose
Adaptive and mechanical memory strategies emerge from the specific condensation patterns that persist following repetitive nuclear deformations in microfluidic environments.
Molecular basis of collagen galactosylation by GLT25D1
Sun, Huanhuan, Zhang, Min, Shi, Yunshu, Zhang, Di, Hua, Zhengkang, Yang, Ping, Yang, Yizheng, Li, Jiameng, Chen, Jiasheng, Wang, Chao, Li, Peifen, Hu, Xinlin, Ke, Yan, Zhang, Mingjie, Liu, Xiaotian, Yu, Hongjun
Trapped catalytic intermediates reveal the enzyme’s reaction mechanism and provide a structural framework for understanding mutations linked to connective tissue diseases.
Aromaticity-driven laser photo-responses and binding efficiency in IAF-conjugated natural products for neurodegenerative disease targets
Nik Zulkarnine, Nik Humaidi, Faramarzi, Vahid, Hwang, Michael Taeyoung
Strengthened pi-electron delocalization across these modified molecular frameworks optimizes their non-linear optical properties and stabilizes inhibitory interactions with amyloid-beta and acetylcholinesterase.
Experimentally informed, quantitative photocycle model of the light-gated potassium channel WiChR
Sophia Ohnemus, Linda Tillert, Roberta De Zio, Raluca-Andreea Tifrea, Andries Napo Leemisa, Simon Beyer, Peter Kohl, Viviane Timmermann, Franziska Schneider-Warme, Johannes Vierock
High light sensitivity and prolonged channel opening facilitate reliable optogenetic suppression of action potential firing in neurons and cardiomyocytes.
Vortex formation in the Vicsek model with internal chirality of self-propelling objects
W. T. Gozdz, A. Ciach
Incorporating fixed angular biases into the noise term disrupts macroscopic traveling bands and induces a transition from ballistic to diffusive dynamics as particles become trapped within localized rotating structures.
Geometry and dynamical morphology of growing bacterial colonies
Benjamin Evert Himberg, Sanghita Sengupta
Transient boundary reorganizations cause time-localized departures from single-scale scaling laws while bulk expansion remains continuous.
AI driven 3D subcellular RPE map discovers cell state transitions in establishment of apical-basal polarity
Ortolan, Davide, Sathe, Pushkar, Volkov, Andrei, Reichert, Dominik, Sebastian, Sheldon, Maminishkis, Arvydas, Schaub, Nicholas J., Ljungquist, Bengt, Bose, Devika, Ferrari, Jorge, Lin, Nyusha, Pegoraro, Gianluca, Simon, Carl G., Sharma, Ruchi, Bajcsy, Peter, Bharti, Kapil
Five distinct organelle-based “morphotypes” define the sequential structural milestones required for cells to transition from unpolarized precursors to a mature, functional epithelium.
G-quadruplexes self-assembled from nucleotide monomers as stable prepolymer scaffolds in aqueous environments
Eiby, Simon H. J., Catley, Thomas E., Gamill, Max C. , Pyne, Alice L. B., Hassenkam, Tue
Thermal cycling transforms these structures into extended RNA-like polymers, providing a selective mechanism for the concentration and persistence of genetic material in dilute prebiotic environments.
Field-Theoretic Approach to Compartmental Neuronal Networks: Impact of Dendritic Calcium Spike-Dependent Bursting
Audrey O’Brien Teasley and Gabriel Koch Ocker
Nonlinear dendritic properties and compartmentalized inputs interact to govern the collective activity patterns of cortical network models.
Emergent Ordering in Active Fluids Driven by Substrate Deformations: Mechanisms and Patterning Regimes
Varun Venkatesh and Amin Doostmohammadi
Feedback between flow-generated stresses and the elastic response of a flexible boundary dictates the transition from chaotic turbulence to stable, structured configurations.
Exploring the energy landscape of bacterial chromosome segregation
Brahmachari, S.; Oliveira, A. B.; Mello, M. F.; Contessoto, V. G.; Onuchic, J. N.
SMC-mediated lengthwise compaction reshapes the chromosomal architecture to trigger origin segregation and prevent an inhibitory nematic-like alignment of sister chromosomes caused by non-specific adhesion.
Auditory frequency analysis as an active dissipative process
Yasuki Murakami
A minimal active beam model balances local energy injection and spatial redistribution to replicate the cochlea’s sharp tuning, high gain, and spontaneous emissions, framing mammalian hearing as a nonequilibrium pattern-forming system.
Active Site Local Environment Allows Acidic and Basic Synergy in Enzymatic Ester Hydrolysis by PETase
Fan, J.; Ha, Y.
Proton shuttle-mediated nucleophilic attack and hydrogen-bond stabilization of reaction intermediates provide a mechanistic basis for improving catalytic efficiency through enhanced alkaline tolerance and carbonyl polarization.
A biophysical framework for accurately identifying antigen single-amino acid escape variants and corresponding variant-specific compensatory TCR sequences
Ghoreyshi, Z. S.; Levine, H.; Lin, X.; Onuchic, J. N.; George, J. T.
Coarse-grained structural modeling integrated with experimental alanine-scan data reconstructs TCR-peptide binding energetics to quantify the impact of mutations and guide the rational design of affinity-restoring interactions for immunotherapeutic applications.
On the Use of Double Mutant Cycles to Probe the Molecular Interactions in Biomolecular Condensates
Rauh, A. S.; Tesei, G.; Lindorff-Larsen, K.
Arginine-tyrosine and aromatic interactions contribute additively to the phase separation of the hnRNPA1 low-complexity domain, whereas charged residues exhibit non-additive contributions influenced by the protein’s net charge.
Viscoelastic properties of tumor spheroids revealed by a microfluidic compression device and a modified power law model
Mrinal Pandey, Bangguo Zhu, Kaitlyn Roach, Young Joon Suh, Jeffrey E. Segall, Chung-Yuen Hui, Mingming Wu
Non-tumorigenic spheroids exhibit shorter relaxation times and lower plasticity than their tumorigenic counterparts, establishing these time-dependent mechanical responses as effective biomarkers for characterizing tumor malignancy.
Scaling Law for Sequence-Induced Demixing of Compositionally Identical Copolymers
Artem M. Rumyantsev, Alexey A. Gavrilov
Monomer positional correlations drive a universal \(1/\sqrt{N}\) scaling of critical incompatibility, a finding confirmed by simulations and applicable to both regular and statistical sequences.
Buoyancy-driven sorting of synthetic cells for nanopore activity
Lehr, M.; Unger, M.; Abele, T.; Maurer, S. J.; Flemming, D.; Göpfrich, K.
Density equilibration triggered by pore-mediated solute exchange facilitates the label-free isolation and enrichment of functional giant unilamellar vesicles via passive flotation.
Adenocarcinoma cell mechanobiology is altered by the loss modulus of the surrounding extracellular matrix
Smith, A. M.; Pardi, B. M.; Sousa, I.; Gopinath, A.; Andresen Eguiluz, R. C.
A549 cells exhibit slower migration and larger focal adhesions on stiff elastic substrates compared to viscoelastic ones, whereas intermediate-stiffness substrates trigger an inverse migration response, demonstrating that matrix dissipative properties regulate epithelial behavior in a stiffness-dependent manner.
Impact of protein corona morphology on nanoparticle diffusion in biological fluids: insights from a mesoscale approach
Beatrice Cipriani, Hender Lopez
Explicitly modeling the structural complexity of the protein corona in crowded biological media reveals the inaccuracies of traditional single-sphere approximations and provides a refined parameterization strategy for predicting nanoparticle mobility.
Effect of charge regulation on the screening properties of zwitterionic macroion solutions
Rashmi Kandari, Rudolf Podgornik, Sunita Kumari
A generalized calculation scheme identifies a dual-component mechanism for screening—comprising effective Debye length and surface dissociation equilibrium—that produces a screening resonance influenced by environment-induced charge non-uniformity.
Dynamical Boundary Following and Corner Trapping of Undulating Worms
Sohum Sanjiv Kapadia, Arshad Kudrolli
The interplay between forward propulsion and rotational diffusion, quantified by the Péclet number, explains the spatial localization of these organisms in confined environments as a physical phenomenon that occurs independently of biological thigmotaxis.
Transient protein structure guides surface diffusion pathways for electron transport in membrane supercomplexes
Chan, Chun Kit, Nguyen, Jonathan, Hryc, Corey F., Gupta, Chitrak, Redding, Kevin, Dowhan, William, Baker, Matthew L., Perez, Alberto, Mileykovskaya, Eugenia, Singharoy, Abhishek
Integrated multiscale modeling and cryo-electron microscopy reveal the mechanical principles that optimize energy conversion efficiency within mitochondrial systems.
Stabilized real-time Brillouin microscopy reveals fractal organization of protein condensates in living cells
Testi, Claudia, Pontecorvo, Emanuele, Bartoli, Chiara, Marzaro, Chiara, Gala, Fabrizio, Zhang, Li, Zanini, Giulia, D’Abbondanza, Noemi, Garone, Maria Giovanna, de Turris, Valeria, Giuliani, Andrea, Di Timoteo, Gaia, Bozzoni, Irene, Rosa, Alessandro, Ruocco, Giancarlo
User-independent and high-precision mechanical measurements provide insight into the biophysical properties of pathological assemblies associated with neurodegenerative diseases.
In vitro-prepared A30P alpha-synuclein fibrils adopt the conserved and disease-relevant Greek key fold
Milchberg, M. H.; Warmuth, O. A.; Borcik, C. G.; Han, R.; Harding, B. D.; Dhavale, D. D.; Kotzbauer, P. T.; Wright, E. R.; Schwieters, C. D.; Rienstra, C. M.
The P30 mutation site resides outside the fibril core in a high-resolution solid-state NMR structure that closely matches ex vivo patient-derived polymorphs.
A high-resolution, easy-to-build light-sheet microscope for subcellular imaging
Hsin-Yu Lin, John Haug, Kevin M Dean, Seweryn Gałecki, Xiaoding Wang
Altair-LSFM utilizes an in silico-optimized baseplate and open-source software to provide sub-350 nm resolution of cytoskeletal and organelle dynamics while simplifying the assembly and maintenance of high-performance hardware.
Two-step voltage-sensor activation of the human KV7.4 channel and effect of a deafness-associated mutation
Nappi, Mario, Frampton, Damon J. A., Kusay, Ali S., Wang, Kaiqian, Yasarbas, S. Suheda, Pozzi, Serena, Miceli, Francesco, Liin, Sara I., Taglialatela, Maurizio, Pantazis, Antonios
Intermediate conformational transitions within the voltage-sensing domain coordinate pore opening and are rendered dysfunctional by pathogenic mutations associated with sensorineural hearing loss.
Metastability and ripening of multi-component liquid mixtures
Giacomo Bartolucci, Fabrizio Olmeda
Disordered interactions among components induce glass-like relaxation and metastable states with varying wetting angles, significantly delaying the expected power-law scaling of Ostwald ripening.
Sculpting 2D Crystals via Membrane Contractions before and during Solidification
Hao Wan, Geunwoong Jeon, Gregory M. Grason, Maria M. Santore
Bending elasticity and line energy trade-offs, regulated by size-dependent tension relaxation through water permeation, determine the transition between compact and flower-like morphologies.
Transport Properties of Active Particles Moving on Adjustable Networks
William G. C. Oropesa, P. de Castro, Hartmut Löwen, Danilo B. Liarte
Trail-induced blocking of lattice links leads to a monotonic increase in diffusivity with particle persistence, creating a transport regime distinct from the mobility reductions typically caused by excluded-volume interactions.
Algal optics
Ming Yang, Sumit Kumar Birwa, and Raymond E. Goldstein
Spherical cell bodies concentrate incoming light onto internal photoreceptors to facilitate and direct phototactic movement in transparent microorganisms.
Apical and basolateral plasma membranes in epithelial cells have distinct lipidomes and biophysical properties
Carolyn R. Shurer, Kandice R. Levental, Ilya Levental
Differential lipid organization establishes the specific biophysical environments required for polarized epithelial surfaces to execute their specialized physiological functions.
Atomic resolution ensembles of intrinsically disordered proteins with Alphafold
Schnapka, Vincent, Morozova, Tatiana I., Sen, Samiran, Bonomi, Massimiliano
bAIes integrates predictive structural data into a molecular dynamics framework to accelerate the sampling of heterogeneous conformational states.
Droplet on Demand Tape Drive and XES Prototypes for Time-Resolved Serial Crystallography at VMXi, Diamond Light Source
Aller, P.; Sanchez-Weatherby, J.; Telfer, A.; Bosman, R.; Devenish, N. E.; Hinchliffe, P.; Horrell, S.; Ip, J.; Littlewood, R.; Male, A.; Gimenez-Navarro, E.; Neuman, U.; Kamps, J. J. A. G.; Omar, D.; Parkinson, L.; Pandi, M.; Rubies, N.; Sandy, J.; Shilova, A.; Spencer, J.; Spiers, J.; Sutter, J. P.; Thompson, A. J.; Tooke, C. L.; Williams, B.; Zhou, T.; Hough, M. A.; Orville, A. M.
Integration of these methodologies demonstrates the feasibility of performing complex time-resolved experiments, previously restricted to X-ray free-electron lasers, at third-generation synchrotron facilities.
Collective is Different: Information Exchange and Speed-Accuracy Trade-Offs in Self-Organized Patterning
Ashutosh Tripathi, Jörn Dunkel, and Dominic J. Skinner
Optimized strategies for achieving collective configurations do not always maximize information transfer, revealing a counterintuitive disconnect between communication efficiency and system performance.
Nanocellulose hydrogels as bio-interface analogs for studying nanomaterial transport and accumulation
Prince, J.; Taylor, D.; Jones, A.-A. D.
Tunable synthetic constructs emulate the size-exclusion and charge-interaction mechanisms of biofilms to quantify how nanomaterial properties influence penetration without the confounding variables of living biological responses.
Selective binding of divalent cations reshapes nucleosome mechanics and unlocks histone tail dynamics
Hu, Guanhua, Zhang, Houfang, Xu, Wang, Liu, Gege, Peng, Yunhui
Nucleosome plasticity and its impact on essential chromatin-related processes are regulated by the structural and mechanical changes induced by specific ionic environments.
Open-State Dynamics and Allosteric Modulation of the α1β3γ2 GABAA Receptor Stabilized by L9’T/S Substitutions
Diyaolu, A.; Borghese, C. M.; Goldschen-Ohm, M. P.; Natesan, S.
Positive allosteric modulators primarily tune the intracellular desensitization gate, whereas orthosteric antagonists drive a sequential, bottom-to-top pore closure through an asymmetric collapse of the transmembrane helices.
The orientation of cholesterol’s hydroxyl group affects its membrane dynamics and intracellular transport
Lauritsen, L.; Pauli, A. T.; Larsen, M. P. W.; Reinholdt, P.; Scheidt, H. A.; Xu, Y.; Covey, D. F.; Depta, L.; Bryce-Rogers, H. P.; Laraia, L.; Kongsted, J.; Wüstner, D.
Stereochemical differences between cholesterol and epicholesterol dictate membrane flip-flop rates, protein-mediated trafficking, and the metabolic capacity for esterification and lipid droplet storage in human astrocytes.
RNA at Lipid/Water Interfaces: Molecular Insights from Coarse-Grained Simulations and Reflectivity Data Predictions
Ibrahim, M.; Koefinger, J.; Zacharias, M.; Schneck, E.; Schwierz, N.
Single-stranded segments demonstrate stronger membrane binding than double-stranded regions, while backmapping to atomistic resolution enables the precise prediction of scattering profiles to differentiate between various adsorbed conformations.
Computational insights on the competition between electrotaxis and durotaxis
Saez, P.; Kulkarni, S.; Nunes, C. d. O.; Zhao, M.; Barriga, E. H.
Electric fields can override or reverse mechanical signals in a cell-specific manner, and a new open-access platform enables the prediction of these interactions to optimize guidance for tissue regeneration and cancer treatment.
Going around phase defects: reliable phase mapping for realistic data
Verstraeten, B.; Lootens, S.; Van Den Abeele, R.; Van Nieuwenhuize, V.; Okenov, A.; Hendrickx, S.; Santos bezzera, A.; Nezlobinskii, T.; Kappadan, V.; Handa, B. S.; Ng, F. S.; Duytschaever, M.; Vandersickel, N.
Extended phase mapping accounts for conduction blocks and anatomical boundaries to provide a unified characterization of rotational drivers, establishing critical phase defects as the fundamental framework for analyzing cardiac electrical dynamics.
Mechanism of O2 Activation for Conversion of Fatty Acids into Terminal Alkenes in a Membrane-bound Metalloenzyme UndB
Nisha, S.; Choudhury, A.; Roy, S.
Dynamic iron cofactors form a peroxodiiron(III/III) intermediate to drive a non-canonical catalytic pathway for regiospecific \(C-\beta\) bond-breaking, explaining the high levels of hydrogen peroxide observed during the reaction.
Molecular and Cellular Determinants of Human Iron Overload Cardiomyopathy
Modak, S.; Greenberg, L.; Stump, W. T.; Greenberg, A. E.; Huebsch, N.; Greenberg, M. J.
Engineered heart tissues reveal that contractile failure and arrhythmias result from disrupted calcium handling, oxidative damage to sarcomeric proteins, and direct inhibition of myosin motor function.
Customization and tuning of the degradation rate of X-Ca-Alginate aerogels in the presence of PC 12 cells
Martina Rodriguez Sala, Grigorios Raptopoulos, Patrina Paraskevopoulou, Omar Skalli, Firouzeh Sabri
Polyurea-crosslinked calcium alginate aerogels facilitate PC12 cell adhesion and neurite outgrowth while exhibiting rapid loss of area and stiffness under DC electrical bias, proving their efficacy as degradable scaffolds for nerve regeneration.
Distinct allosteric paths mediate Ca2+-dependent increase in the NMDA receptor sensitivity to open-channel blockers
Mae G. Weaver, Jamie A. Abbott, Gabriela K. Popescu
Fluctuations in extracellular calcium levels modify gating kinetics and conductance to regulate receptor responses during synaptic activity and pathological states.
An experimentally-informed polymer model reveals high resolution organization of genomic loci
Mittal, Rahul, Heermann, Dieter W., Bhattacherjee, Arnab
Active and inactive genomic loci possess distinct chromatin structural arrangements that differentiate their functional states.
An inter-subunit path is required for entropically-driven and negatively cooperative binding of cyclic nucleotides in the HCN2 channel
Costa, Flavio, Ng, Leo C. T., Chow, Sarah S., Van Petegem, Filip, Accili, Eric A.
Stabilization of adjacent subunits upon initial ligand occupancy defines the specific structural communication route that mediates negative cooperativity.
Heterogeneity dominates irreversibility in random Markov models
Faheem Mosam, Eric De Giuli
Human fMRI and EEG data operate near a critical locus of diverging relaxation times, revealing a super-universality across neural modalities within a framework that unifies criticality and nonequilibrium measures.
Effects of prosthetic ankle power and foot stiffness category on biomechanical asymmetry and knee moment during walking at different speeds
Tacca, Joshua R., Colvin, Zane A., Grabowski, Alena M.
Powered ankle settings up to 20% greater than biological norms combined with stiffer foot categories minimize gait asymmetries and may reduce the risk of joint pain in the unaffected limb.
Sequence-context-aware decoding enables robust reconstruction of protein dynamics from crystallographic B-factors
Wang, Y.; Cai, M.; Ma, Y.; Wei, K.
The B-Factor Corrector utilizes a fine-tuned language model to separate intrinsic flexibility from experimental artifacts, allowing researchers to pinpoint functional mechanical hinges and optimize antibody interfaces.
Continuous mass photometry by single molecule trapping
Loewenthal, D.; Asor, R.; Thorpe, S.; Peters, J. S.; Zouboulis, K. C.; Kaplan, M.; Thiele, J. C.; Bardzil, J.; Helmi, S.; Burnap, S. A.; Tan, T. K.; Struwe, W. B.; Benesch, J. L.; Kukura, P.
Sub-kDa mass precision and millisecond temporal resolution facilitate the hour-long, quantitative tracking of dynamic biomolecular interactions and complex assembly.
How to Train Your Resistive Network: Generalized Equilibrium Propagation and Analytical Learning
Jonathan Lin, Aman Desai, Frank Barrows, Francesco Caravelli
Graph-theoretic derivations of Kirchhoff’s laws provide a mechanism for exact gradient calculation that enables training analog hardware using only output-layer readouts and partial parameter updates.
Programming entropy production hotspots via interaction patterning
Caroline Desgranges, Jerome Delhommelle
Repulsive and attractive patches on flow-exposed surfaces generate tunable dissipation maps that provide localized power for nanomachinery.
Molecular-level observation of the self-assembly of a virus-like particle
Asor, R.; Loewenthal, D.; Melnyk, D.; Tan, T. K.; Kukura, P.
Weak multivalent interactions and a separation of timescales between the formation of topologically closed intermediates drive a high-fidelity nucleation and growth mechanism characterized by a sequence of effectively irreversible first-passage events.
Batrachotoxin Sensitive Sodium Channels in Toxic Birds Challenge “Target Mutation” Strategy of Toxin Autoresistance
Gromilina, E.; Jia, Z.; Thyagarajan, M. J.; Yang, H.; Yang, D.; Abderemane-Ali, F.
NaV1.4 mutations in toxic birds fail to alter batrachotoxin sensitivity or channel kinetics, suggesting that toxin sequestration rather than target-site mutation provides the primary mechanism for bird autoresistance.
Divergent Molecular Phenotypes in Point Mutations at the Same Residue in Beta-Myosin Heavy Chain Lead to Distinct Cardiomyopathies
Lehman, S. J.; Meller, A.; Solieva, S. O.; Lotthammer, J. M.; Greenberg, L.; Langer, S. J.; Greenberg, M. J.; Tardiff, J. C.; Bowman, G. R.; Leinwand, L. A.
The I467T mutation uniquely reduces basal myosin ATPase activity via allosteric disruption of nucleotide binding, distinguishing its molecular phenotype from the I467V variant despite both mutations exhibiting similar enhancements in actin velocity.
Theory of Nonequilibrium Crystallization and the Phase Diagram of Active Brownian Spheres
Daniel Evans, Ahmad Omar
A statistical mechanical description of density and crystallinity fields demonstrates that increased activity shifts the order-disorder transition to higher packing fractions and enables the quantitative construction of a complete phase diagram including the solid-liquid-gas triple point.
The chromatin remodeller CHD4 regulates transcription factor binding to both prevent activation of silent enhancers and maintain active regulatory elements
Andria Koulle, Brian Hendrich, David Lando, Devina Shah, Ernest D Laue, India Baker, Maya Lopez, Nicola Reynolds, Oluwaseun Ogundele, Ramy Ragheb
CHD4 actively restricts the residence time of transcription factors on chromatin to minimize transcriptional noise and preserve the responsiveness of active regulatory networks.
Thermally activated history-dependent homogenization of G-quadruplexes in an ALS/FTD-associated gene
Daniel Ross, Olivia Lewis, Olivia McLean, Sundeep Bhanot, Shane Donahue, Rachael Baker, Randi Dias, David Eagerton, Vaibhav Mohanty, Bidyut K. Mohanty
Thermodynamic transitions between distinct structural topologies influence the fidelity of DNA synthesis, providing a potential mechanism for the pathological expansion of hexanucleotide repeats.
JanusDDG: a physics-informed neural network for sequence-based protein stability via two-fronts attention
Barducci, Guido, Rossi, Ivan, Codicé, Francesco, Rollo, Cesare, Repetto, Valeria, Pancotti, Corrado, Iannibelli, Virginia, Sanavia, Tiziana, Fariselli, Piero
Thermodynamic consistency and structural-level performance are achieved across multiple mutation predictions to ensure physical reliability in stability modeling.
Molecular mechanism of phosphate import by the bacterial PstSCAB transporter
Xiao, Hu, Li, Shanqin, Qi, Ruxi, Hu, Yuxiang, Jiang, Xiaozi, Luo, Jing, Wu, Jing, Zhang, Lei, Xu, Shuman, Lu, Defen, Yang, Xinwang, Chen, Qingfeng, Liu, Sheng
Cryo-EM structures across multiple states reveal the specific conformational transitions driving transport and identify structural vulnerabilities for potential antibiotic development.
Backbone Rigidity Encodes Universal Viscoelastic Signatures in Biomolecular Condensates
Sean Yang, Subhadip Biswas, Davit A. Potoyan
Coarse-grained models of A1-LCD variants reproduce experimental storage and loss moduli only when sequence-dependent stiffness is included, whereas traditional flexible chain representations incorrectly predict purely viscous behavior.
Quantum Information Flow in Microtubule Tryptophan Networks
Lea Gassab, Onur Pusuluk, Travis J. A. Craddock
Lindbladian analysis of ultraviolet excitation dynamics reveals that initial state preparation and structural hierarchy govern the routing and persistence of nonclassical correlations through the competing effects of superradiant export and subradiant retention.
Can ferric-oxyl excited states explain elongated iron-oxygen bonds in heme peroxidase catalytic intermediates?
Williams, Lewis J., Kamps, Jos J.A.G., Brânzanic, Adrian M. V., Lehene, Maria, Lundgren, Kristoffer J. M., Ryde, Ulf, Chatterjee, Kuntal, Doyle, Margaret D., Simon, Philipp S., Makita, Hiroki, Thompson, Amy J., Brewster, Aaron S., Zhou, Tiankun, Lučić, Marina, Wilson, Michael T., Aller, Pierre, Sanchez-Weatherby, Juan, Gee, Leland, Dehe, Sebastian, Mous, Sandra, Yano, Junko, Yachandra, Vittal K., Hough, Michael A., Orville, Allen M., Kern, Jan F., Silaghi-Dumitrescu, Radu L., Worrall, Jonathan A. R.
Ferric-oxyl excited states manifest along the catalytic reaction coordinate, identifying their presence during the oxidative pathway of these enzymes.
Tiny Plastic, Big Trouble: How polystyrene nanoparticles impact DNA-damage repair deficient cervical cancer cells
Jordan D Berezowitz, Mira C Fish, Lauren E Mehanna, Breanna Knicely, Claire E Rowlands, Eva M Goellner, Brittany E Givens
High concentrations of these particles are required to elicit measurable toxicological effects within 24 hours, despite their confirmed cellular internalization and the cells’ specific MLH1 or MSH2 deficiencies.
Automatic learning mechanisms for flexible human locomotion
Amy J Bastian, Cris Rossi, Kristan Leech, Ryan Roemmich
Stimulus-reponse mapping operates in tandem with forward model recalibration to enable rapid, subconscious adjustments to stepping patterns across varying environmental configurations.
Flow-induced bending response rheometer to measure viscoelastic bending of soft microrods
Barrett T Smith, Michal Czerepaniak, Maciej Lisicki, Sara M Hashmi
Pressure-driven capillary inflow applies quantifiable hydrodynamic forces to determine mechanical properties across six orders of magnitude in stiffness using synchronized video microscopy and Euler-Bernoulli beam modeling.
Complex excitability and “flipping” of granule cells: An experimental and computational study
Joanna Danielewicz, Guillaume Girier, Anton Chizhov, Mathieu Desroches, Juan-Manuel Encinas, Serafim Rodrigues
Sodium channel state configurations dictate the ability of neurons to overcome depolarization block and resume action potential generation at high current intensities.
Acquired motility of Babesia microti–infected red blood cells
Chao Li, Amy L. Apgar, Danielle M. Tufts, Tagbo H. R. Niepa
Intracellular parasite movements drive the active displacement of host cells formerly characterized as nonmotile.
Rheologically tuned diffusion modulates quorum sensing in Vibrio fischeri
Chunhe Li, Zixiang Lin, Hongyi Bian, Anqi Li, Honyi Xin, Zijie Qu
Turning-focused motility in viscous environments restricts cellular dispersal and signal encounters, causing the timing and intensity of collective signaling to depend on whether the surrounding fluid exhibits Newtonian or non-Newtonian properties.
Scalable Spatio-Temporal SE(3) Diffusion for Long-Horizon Protein Dynamics
Nima Shoghi, Yuxuan Liu, Yuning Shen, Rob Brekelmans, Pan Li, Quanquan Gu
STAR-MD utilizes a causal transformer with joint attention to generate stable microsecond-scale trajectories that achieve state-of-the-art accuracy on the ATLAS benchmark while overcoming memory bottlenecks and error accumulation.
Resolving Conformational Heterogeneity in IntrinsicallyDisordered Proteins via Experimentally Guided Multi-Replica Simulations
Yang, W.; Yang, S.; Zheng, W.
Integrating small-angle X-ray scattering and six paramagnetic relaxation enhancement profiles identifies a low-populated, functionally relevant compact state in the estrogen receptor alpha N-terminal domain.
Thermodynamic cost-controllability tradeoff in metabolic currency coupling
Jumpei F. Yamagishi, Tetsuhiro S. Hatakeyama
Maintaining comparable abundances of coupled currencies facilitates independent metabolic regulation in complex environments at the cost of increased entropy production, whereas imbalanced pools minimize energy dissipation in simpler settings.
A Three-State Thermodynamically Consistent Cross-Bridge Model for Muscle Contraction
Yiwei Wang, Chun Liu
A Fokker-Planck-jump framework unifies Hill’s cycle-affinity and Huxley’s sliding-filament theories by coupling ATP-driven transitions with mechanical convection to derive macroscopic force-velocity relations from microscopic free-energy landscapes.
Nonlinear dependency of the bacterial flagellar motor speed on proton motive force and its consequences for swimming
Krasnopeeva, E.; Le Nagard, L.; Perez, U. B.; Poon, W. C. K.; Lo, C.-J.; Pilizota, T.
Saturation in the high-torque regime invalidates the assumption of tight coupling across the entire physiological range and defines the mechanical limits under which bacteria naturally swim.
Slow diffusion limits phosphorylation in a biomolecular condensate
Gonzalez-Foutel, N. S.; Garg, A.; Lande, E. S.; Khalild, A.; Morkholt Lund, L.; Birkedal, V.; Martens, C.; Kjaergaard, M.
Kinase activity in synthetic condensates is governed by mass-transport limitations, where the inhibitory effect of slow substrate diffusion often outweighs the kinetic benefits of increased local concentration.
The monomeric conformational ensembles of Aβ40 and Aβ42 encode their differential amyloid aggregation propensity
Cadenelli, I.; Ciccolo, A.; Tagliabue, A.; Rossi, G.; Conti Nibali, V.; Bochicchio, D.
Aβ42 monomers exhibit increased β-structure propensity and hydrophobic exposure in the C-terminal region, creating a structural basis for the peptide’s enhanced amyloidogenicity compared to the Aβ40 isoform.
Adaptive Landscapes of Plasmodium Falciparum Dihydrofolate Reductase Reveal Pathways to Antifolate Resistance
Muzata, D.; Sanyal, D.; Pandey, D.; Chakraborti, S.; Uversky, V. N.; Upadhyay, P.; Chowdhury, S.
Evolutionary constraints limit adaptation to a narrow sequence ridge where stabilizing mutations facilitate the survival of deleterious resistance changes by reorganizing internal enzyme communication and expanding conformational sampling.
Rod shape bacterial motion in 2D confinement to decouple hydrodynamic and steric wall effects
Saratkar, S.; Raza, M. R.
Hydrodynamic interactions drive wall-hugging and alignment, whereas purely steric constraints have no significant impact on bacterial motion patterns regardless of channel width.
Temperature and intrinsic Ca2+ reshape TRPM4 pharmacology
Hu, J.; Ievleva, S.; Park, S. J.; Lee, J.; Cheng, J.; O’Dea, G.; Sheng, J.; Du, J.; Lü, W.
Physiological synergy between heat and calcium ions converts the ligand TPPO into a potent activator, demonstrating that TRPM4 binding pockets exhibit environment-dependent recognition and hidden pharmacological states.
Circling crystals in chiral active matter with self-alignment
Marco Musacchio, Alexander P. Antonov, Hartmut Löwen, Lorenzo Caprini
Collective circular trajectories transition into vortex-dominated phases characterized by oscillating velocity correlations and power-law energy spectra as chiral forces outweigh particle alignment.
Spatial molecular profiling of living single-cell by membrane-interfaced 3D SERS substrates
Yu, Hyeim, Yun, Jiwon, Nam, Wonil
Flexible plasmonic platforms integrate porous membranes with three-dimensional electromagnetic “hot spots” to achieve non-invasive, label-free mapping of intracellular biomolecules and metabolic responses at sub-micrometer resolution.
Simulating Thermoresponsive Behavior of Disordered Proteins with Temperature-Dependent Coarse-Grained Potentials Derived from Hydration Free Energies
Chen, F.; Zeng, X.
The TEA framework distinguishes and predicts both LCST and UCST phase transitions by mapping atomistic hydration thermodynamics to coarse-grained models via a single global scaling parameter.
The filamentous ultrastructure of the PopZ condensate is required for its cellular function
Scholl, Daniel, Boyd, Tumara, Latham, Andrew P., Salazar, Alexandra, Khan, Asma M. A. M., Boeynaems, Steven, Holehouse, Alex S., Lander, Gabriel C., Sali, Andrej, Park, Donghyun, Deniz, Ashok A., Lasker, Keren
Helical and disordered domains regulate the assembly of these structures to facilitate phase-dependent client interactions and support bacterial growth.
Controlled route to active turbulence: Filling an activity spot with topological defects
Arghavan Partovifard, Holger Stark
Discrete stages of topological defect entry into an expanding active spot govern the transition to turbulence, with enstrophy and chaotic flow emerging respectively at the thresholds of two and three +1/2 defects.
Lipid droplet isolation as a novel platform for spectroscopic investigation of cargo modifications
Chrabaszcz, K.; Panek, A.; Pogoda, K.
Cannabidiol and ionizing radiation induce distinct, cell-type-specific lipid remodeling and chemical heterogeneity, establishing lipid droplets as sensitive reporters of metabolic reprogramming and radiosensitization in malignant peripheral nerve sheath tumor cells.
Flagellar rotation comes full circle
Michael D. Manson
Autonomous rotation of individual stator complexes provides the mechanical basis for torque generation and power transmission within the bacterial flagellar motor.
Imaging intercellular biomolecules by using fluorescent protein indicators with lipid-PEG anchors
Mita, Marie, Kiyosue, Kazuyuki, Tani, Tomomi
Non-genetic surface immobilization enables stable, real-time monitoring of potassium and glutamate release in hippocampal neurons and acute brain slices with high sensitivity and minimal invasiveness.
Gravity and human respiration: biophysical limitations in mass transport and exchange in spaceflight environments
Dutta, Som, Tulodziecki, Dana, Schwertz, Hansjorg, Kadomtsev, Anton, Parik, Aditya, Chen, Yi-Cheng, D’Agostino, Dominic P., Dagar, Manisha, Tabetah, Marshall, Rubins, Kathleen, Alexander, David, Porterfield, D. Marshall
Eliminating weight-dependent gradients shifts the primary drivers of ventilation and aerosol deposition toward intrinsic structural geometry and diffusive transport mechanisms.
From shape to fate: making bacterial swarming expansion predictable
Shengyou Duan, Zhaoyang Wang, Kaiyi Xiong, Jin Zhu, Pengxi Gu, Weijie Chen, Hongyi Xin, Zijie Qu
The Morpher forecasting network and TexPol-Net segmentation model leverage local boundary geometry and structural memory to accurately predict the complex, anisotropic evolution of bacterial colony fronts.
Direct observation of ATP-driven ubiquitin chain handling by Cdc48
Choudhary, D.; Tait, J. R.; Kracht, M.; Roland, A.; van den Boom, J.; Sunderlikova, V.; Meyer, H.; Tans, S.
Repetitive sampling of polypeptide branch points via non-processive pore insertion precedes a transition to processive unfolding and loop extrusion, establishing a mechanism for kinetic proofreading during substrate selection.
Reconstructing Actin Dynamics of the Leading Edge from Observational Data
Shi, W.; Miles, C.; Noh, J.; Danuser, G.; Mogilner, A.
Damped oscillatory cycles driven by positive Arp2/3 and negative F-actin feedback loops govern cell protrusion velocity.
Conformational Dynamics of Na+-Pumping NADH-Quinone Oxidoreductase during Na+ Translocation from AlphaFold-Facilitated Markov State Modeling
Seki, T.; Ohnuki, J.; Okazaki, K.-i.
Redox switching and ion binding regulate the alternating-access mechanism of the NqrD/E subunits by modulating thermodynamic landscapes and primary transition pathways.
Unified origin of negative energetic elasticity in a lattice polymer chain: soft self-repulsion and bending stiffness
Nobu C. Shirai
Soft-core self-repulsion and bending energy both yield negative energetic stiffness in single lattice polymer chains, yet they exhibit distinct internal-energy scaling signatures that allow their individual contributions to be identified.
Size and shape of terrestrial animals
Neelima Sharma, Madhusudhan Venkadesan
Fractal terrain roughness dictates the scaling of frontal body proportions by requiring smaller species to adopt wider aspect ratios for lateral stability during locomotion.
Dielectrophoresis Reveals Stimulus-Induced Remodeling of Insulin Granule Subpopulations
Archambeau, A.; Korma, T.; Deshmukh, A.; Hayes, M. A.; White, K. L.
Immature, young, and old insulin secretory granules exhibit distinct electrokinetic mobility profiles that shift toward more mature, crystalline states when exposed to insulinotropic stimuli.
Molecular mechanisms of mitochondrial Ca2+ exchanger NCLX
Zhang, L.; Han, Y.; Zeng, W.; Xue, J.; Wang, Y.; Jiang, Y.
Cryo-EM structures reveal that NCLX utilizes a sliding-door alternating-access mechanism and a non-selective ion-binding pocket to exchange mitochondrial Ca2+ for various cations, including Na+, K+, and Li+.
Harnessing the Peripheral Surface Information Entropy from Globular Protein-Peptide Complexes
Tyler Grear, Donald J. Jacobs
Statistical patterns in apolar and charged non-interacting surface proportions distinguish favorable binding partners through the emergence of discrete, low-entropy macrostates shaped by evolutionary selection.
Distance-Restraint-Guided Diffusion Models for Sampling Protein Conformational Changes and Ligand Dissociation Pathways
Hori, T.; Moriwaki, Y.; Ishitani, R.
Boltz-2-integrated center-of-mass distance restraints enable systematic sampling along reaction coordinates to generate high-quality structural ensembles and quantitative free energy landscapes without requiring model retraining.
Long-term single-molecule Ca2+ flux recordings reveal mode-switching regulation of Ca2+-ATPases
Moeller, M. P.; Cvjetkovic, A.; KOSMIDIS, E.; Narducci, A.; Isselstein, M.; Shuttle, C. G.; Justesen, B.; Thompsen, I. L.; Dyla, M.; Hansen, S. B.; Holmkvist, J.; Kjaergaard, M.; Pedersen, P. A.; Nissen, P.; Pomorski, T. G.; Stamou, D.
Stochastic occupancy of a ligand-sensitive dormant mode regulates the timing and heterogeneity of calcium store refilling by gating entry into productive pumping cycles without affecting individual turnover rates.
Osmotic forces modify lipid membrane fluctuations
Amaresh Sahu
Solute diffusion limits the validity of standard membrane relaxation and undulation models to a finite range of wavenumbers that shrinks with increasing surface tension and vanishes entirely at a critical threshold.
Conformational landscape and clustering of human type 2 IP3 receptor in lipid nanodiscs
Liu, C.; Lan, Y.-J.; Tang, Q.; Karakas, E.
Analysis of structures bound to IP3, Ca2+, and ATP identifies the isoform-specific interactions and interchannel mechanisms that link ligand recognition to the subtype’s distinct regulatory role in cellular calcium signaling.
Stress-adaptive biomaterials with tunable yielding architectures regulate organoid morphogenesis
Reeves, J. P.; Rostami, S.; Rammal, M.; Bocan, A.; Lepine, P.; Harrington, M.; Durcan, T.; Moraes, C.
Soft granular hydrogels utilizing supramolecular host-guest chemistry enable yield stress adjustments as small as 10 Pa, revealing that minimal changes in the matrix reconfiguration threshold can fundamentally dictate the formation of lumenized neural rosettes and the extent of cancer cell shedding.
Ab initio prediction of RNA structure ensembles with RNAnneal
Herron, L.; Qiu, Y.; Verma, A.; Adury, V. S. S.; John, R.; Lee, S.; Mehdi, S.; Sanwal, D.; Schneekloth, J. S.; Tiwary, P.
Generative deep learning integrated with physics-based modeling outperforms standard forcefields in classifying native riboswitch conformations and introduces interaction entropy as a novel metric for quantifying ensemble heterogeneity.
Rectifying Stress into Structural Memory Drives Specialization in Cells and Adaptive Computational Systems
Tuyeras, R. V.; Morcuende, A.; Llinares, C.; Segerstolpe, A.; Kellis, M.; Femenia, T.; Agudelo, L. Z.
Phase-aligned fluctuations in cytosolic pH and computational residuals serve as rectified drives that coordinate mitochondrial specialization and persistent architectural updates through a shared framework of nonequilibrium optimization.
PLCβs are recruited to the plasma membrane in macrophages by both Gβγ and Gαq
Falzone, M.; Banerjee, P.; MacKinnon, R.
Gi-coupled receptors independently trigger calcium mobilization by leveraging local concentrations of signaling components to activate PLCβ3 without requiring concurrent Gαq-mediated signaling.
G12 mutations rewire allosteric communication at the Ras-RalGDS interface
Emir Demirbas, Hyunbum Jang, Kayra Kosoglu, Ruth Nussinov, Attila Gursoy, Ozlem Keskin
Long-timescale molecular dynamics simulations characterize the structural mechanics of the Ras-binding domain (RBD) to clarify its critical role in Ras-driven colon and pancreatic cancers.
Microscopy of Bioelectric Potentials using Electrochromism
Burhan Ahmed, Erica Liu, Lothar Maisenbacher, Pengwei Sun, Dana Griffith, Kenneth Nakasone, Yuecheng Zhou, Bianxiao Cui, Holger Müller
High-numerical-aperture electrochromic optical recording achieves a record-breaking 3 μV sensitivity and single-cell resolution for capturing extracellular action potentials from cardiomyocytes.
You ain’t seen nothing, and yet: Future biochemical concentrations can be predicted with surprisingly high accuracy
Ketevan Danelia, Sean A. Ridout, Ilya Nemenman
Maximum a posteriori estimation leveraging the structured nature of biochemical signals enables sensing precision that surpasses classical Berg-Purcell limits, providing a theoretical mechanism for the rapid and accurate cell fate decisions observed in development.
Quantifying 3D Live-Cell Membrane Dynamics Using Dynamic Metal-Induced Energy Transfer Spectroscopy (dynaMIET)
Gallea, J. I.; Karedla, N.; Wang, D.; Zhao, B.; Chen, L.; Enderlein, J.; Chen, T.
Integrating fluorescence correlation spectroscopy enables the simultaneous measurement of lateral molecular diffusion and vertical fluctuations within various organelle membranes at nanometer axial sensitivity and microsecond temporal resolution.
Dynamical density functional theory for dense odd-diffusive fluids
Iman Abdoli, René Wittmann, Hartmut Löwen
Transient circulating currents reshape collective relaxation and induce angular density redistribution in confined geometries, creating a shorter pathway to equilibrium that is further enhanced by repulsive interactions.
Molecular Mechanism of Mitochondrial Complex I Disruption by m.14484T>C Underlying Leber Hereditary Optic Neuropathy
Ajmera, P.; Guion, D.; Barnes, S.; Sadun, A. A.; Alexandrova, A. N.
Destabilization of the hydrogen bond network and E-channel hydration impairs coenzyme Q10 binding and uncouples redox chemistry from proton pumping.
Hydration-Controlled Proton Transport in Respiratory Complex I
Choi, J. H.; Voth, G. A.
Proton-induced formation of a continuous water wire bridges the structural bottleneck between subunits ND3 and ND4L, allowing an excess proton to traverse the lateral pathway and initiate the pumping cycle.
Dual Effect of RNA-like Polyelectrolytes on Stability and Dynamics of Biomolecular Condensates: A Tale of Competitive Short and Long-range Interactions
Sharma, D.; Roy, S.; HAZRA, M. K.
RNA-like polyelectrolytes destabilize electrostatics-driven condensates through long-range repulsion while reinforcing hydrophobic systems as multivalent sticker hubs, creating regime-dependent shifts in droplet stability and molecular mobility.
Many-body contributions to polymorphism and polyhexaticity in a water monolayer
Oriol Vilanova, Giancarlo Franzese
Three-body hydrogen bond interactions promote crystallization while five-body cooperativity stabilizes intermediate hexatic phases and determines the accessibility of the liquid-liquid critical point.
Molecularly specific solubilization of therapeutic antibodies
Han, Z.; Erkamp, N. A.; Scrutton, R.; Licari, G.; Predeina, O.; Evers, A.; Sormanni, P.; Knowles, T.
Combinatorial microfluidic screening and molecular modeling identify distinct, feature-dependent mechanisms for excipient-mediated stabilization, establishing a predictive framework for the rational design of bespoke pharmaceutical formulations.
Structure of the ILT Mutant Shaker K+ Channel and the Mechanism of Voltage Activation
Agrawal, R.; Uriarte, R. M.; Anwandter, B. P.; Thomas, T.; Blachowicz, L.; Koh, Y. H.; Koh, Y.; Bezanila, F.; Perozo, E.; Roux, B.
An intermediate state with a partially activated voltage-sensing domain and closed pore domain reveals that electromechanical coupling is driven by a dynamic shift in the linker’s population equilibrium rather than a direct mechanical pull.
Volumetric mechanoplasticity couples melanoma drug tolerance to susceptibility to CD8+ T cell killing
Zhang, X.; Zhang, D.; Gong, X.; Yu, A. P.; Jain, R. K.; Munn, L. L.; Mak, M.
Nuclear and chromatin remodeling following sustained cellular enlargement activate antioxidant and anti-ferroptotic programs while simultaneously increasing IFN-γ responsiveness and MHC-I expression.
From biting to engulfment: curvature-actin coupling controls phagocytosis of soft, deformable targets
Sadhukhan, S.; Cornell, C. E.; Sandhu, M. K.; Peeters, Y.; Penic, S.; Iglic, A.; Fletcher, D. A.; Jaumouille, V.; Vorselen, D.; Gov, N. S.
Target membrane rigidity and internal pressure drive mechanical transitions between biting, pushing, and full internalization, revealing how physical cues govern the recognition and engulfment of diverse soft biological objects.
Ubiquitous low-energy RNA fluctuations and energetic coupling measured by chemical probing
Choi, E. K.; Bose, R.; Mathews, D. H.; Mustoe, A. M.; Lucks, J. B.
PRIME quantifies RNA structural energetics at nucleotide resolution to reveal that base pairs and tertiary motifs frequently access open states through fluctuations within a 0.5-3 kcal/mol range.
Active strains in the basal organ of Corti in gerbil
Wong, K. H.; Strimbu, C. E.; Olson, E. S.
Spatial transitions between the reticular lamina and outer hair cell bodies exhibit localized mechanical deformations that contrast with uniform regional vibrations to provide empirical constraints for models of cochlear amplification.
A Carboxylate Switch Point Controls Long-Range Energy Transduction in Respiratory Complex I
Beghiah, A.; Saura, P.; Kovalova, T.; Hoeser, F.; Friedrich, T.; Kaila, V. R. I.
D79NuoA acts as a kinetic gate that couples redox chemistry to proton pumping, providing a mechanistic explanation for the drastic loss of energy transduction caused by disease-linked mutations.
The glycine-arginine-rich motif of 53BP1 modulates RNA interactions necessary for its liquid-liquid phase separation during DNA Damage Response
Terraneo, F.; Ceccon, M.; Sapkota, O.; Zheng, T.; Brizioli, M.; dello Stritto, A.; Cummings, S.; Codispoti, S.; Ossolengo, G.; Orsenigo, F.; Magni, S.; Gottinger, A.; Mattevi, A.; Fuxreiter, M.; Fawzi, N. L.; Lottersberger, F.; Giavazzi, F.; d’Adda di Fagagna, F.
The oligomerization domain and the progressive biophysical maturation of 53BP1 condensates are essential for preventing telomere fusions and maintaining genome integrity.