Discover, rate, and discuss biology preprints.

This paper develops a computational model to quantify how DNA supercoiling and topoisomerases regulate bacterial transcription, showing distinct roles for topoisomerase I and gyrase in gene expression.

The paper presents cryo-EM structures of Mycobacterium tuberculosis pyruvate carboxylase, revealing how acetyl-CoA stabilizes the enzyme and enables domain coordination during catalysis.

This study identifies and characterizes nonlinear ion transport phenomena in β-barrel nanopores, linking lumen charge distribution to open-pore rectification and gating.

The paper identifies a conserved residue cluster in BmrA that mediates communication between nucleotide and substrate binding sites in type IV ABC transporters through coupling helix 2.

This study introduces a molecular dynamics model and databases to analyze CDR loop flexibility in antibodies and TCRs, enabling detailed study of their dynamics and machine learning training.

This study introduces DEER spectroscopy to analyze the supramolecular packing of amyloid fibrils, showing that heparin-induced fibrils are mispacked while seeded aggregation improves packing order.

This study shows that optimal receptor distributions on cell surfaces maximize flux, aligning with charge density patterns on ideal conductors.

This study quantifies how single LNA modifications in DNA base pairs affect the thermal stability of liquid crystalline phases formed by gapped DNA constructs.

This study uses molecular dynamics simulations to analyze how domain deletions in α-synuclein affect protein structure and interactions with lipid membranes.

The paper investigates how microstructure evolution in polyelectrolyte gels changes with crosslinking density and multivalent salt concentration using dynamic light scattering.

The paper introduces a label-free method to determine protein melting points at ultralow concentrations, demonstrating its application to botulinum toxin A stabilized by human serum albumin.

This study validates folding energy estimates for variant interpretation, showing that while correlation coefficients are low, the method can improve prediction accuracy by identifying and addressing outlier residues.

The paper measures ERGs in mice to assess contributions of rod, RPE, and Müller glial cells to dark and light-driven changes in sub-retinal space ion concentrations.

This paper develops a computationally efficient gastric compartmental model to simulate diseased stomach function, showing that slow wave abnormalities and impaired coordination delay gastric emptying and reduce mixing efficiency.

This paper develops an EPR-based method to quantify protein-lipid interactions, demonstrating its ability to measure binding affinity and concentration of Tau protein with lipids.

This paper evaluates blind predictions of dynamic water and ion ensembles around RNA using cryo-EM densities from CASP16, finding that molecular dynamics approaches perform best.

This study investigates FUS-ERG fusion oncoprotein-DNA co-condensates, revealing nested asymmetric phase separation and their potential for DNA-based information manipulation.

The paper uses single-molecule imaging to study opioid receptor heterodimerization and shows that blocking MOR-DOR heterodimers reduces morphine tolerance in mice.

This paper introduces a fluorescence-based method to measure serotonin binding to its receptors in vitro using ANAP, showing concentration-dependent quenching and validating it with electrophysiology.

This study identifies a chemical compensation mechanism in cells responding to mechanical stimuli, revealing non-monotonic changes in volume and pH mediated by PI3K/Akt and MAPK/ERK pathway interactions.