biophysical modeling

The paper identifies a mechanical homeostasis mechanism in podocytes where balance between fluid shear stress and cellular contractility prevents injury, showing that reducing blood pressure can worsen outcomes when contractility is impaired.

This study shows that pore-size dynamics in pyroptosis control cell swelling through GSDMD and Ninj1, with distinct permeability regimes affecting ion selectivity and water filtration.

This study identifies a PrfH subfamily that rescues both damaged and intact ribosomes stalled in translation, revealing dual mechanisms for peptide hydrolysis.

This paper uses atomistic simulations to show that ATP hydrolysis in myosin II stores mechanical energy in functional loops through hydrogen bond rearrangements, independent of heat release.

This study identifies and characterizes endolysins from Bacillus spp., designs a chimeric endolysin ArtE2 with broad antibacterial activity, and validates its effectiveness against Gram-positive and Gram-negative bacteria.

This study investigates the mechanism by which Eag chaperones release effector transmembrane domains using biochemical, biophysical, and structural approaches.

This paper introduces a physics-based model explaining how cells maintain histone methylation patterns after division, validated by simulations and experimental data.

This study uses molecular dynamics simulations to reveal the mechanism of lipid transport by BLTPs, showing membrane destabilization is critical for lipid desorption.

This paper identifies two short linear motifs in NCOA4 that bind GATE16 with high avidity, enabling ferritinophagy and revealing a mechanism for iron-dependent regulation of this process.

The study shows the ADGRG6/GPR126 Stachel peptide is intrinsically disordered in solution, with limited helical conformations detected by biophysical experiments.

This study shows that phosphorylation of DEK at S287/S288 by CK2 regulates its chromatin binding and transcriptional activity in a cell-type-specific manner, affecting chromatin compaction and oncogenic pathways in melanoma.

This study reveals ATP-dependent coupling between nucleotide and RNA affinity in WNV NS3h, showing how motif VIL residues modulate RNA binding through conformational changes.

This study clarifies the mechanism of NEIL3 in unhooking Ap-ICLs by showing that a processed form of NEIL3 efficiently removes crosslinks without generating strand breaks.

This study identifies a circRNA-miRNA-mRNA network in ischemic heart disease, revealing circNPHP1's role in enhancing angiogenesis by sponging miR-221-3p to upregulate VEGF-A and BCL2.

This study identifies how SH3 domains activate PI3K by engaging in tertiary interactions with p85, revealing a mechanism for controlling activation through functional selection.

This paper develops a biomechanical framework to optimize the design of a pulsatile Fontan conduit for congenital heart defect palliation, focusing on microstructure and material properties to achieve desired hemodynamic performance.

The paper investigates how HEXIM1 autoinhibition is overcome by 7SK RNA binding to enable P-TEFb inactivation, revealing structural and functional mechanisms of 7SK RNP assembly.

This study uses simulations to analyze CheA domain interactions and identifies dynamic modes that may facilitate autophosphorylation.

This study shows mTOR regulates epithelial apical projections through S6K1-RhoA and aPKC-Lgl2 pathways in zebrafish.

This study identifies PABPC1 as a host factor that selectively targets viral RNA with short poly(A) tails, leading to degradation and antiviral defense, and develops a synthetic therapeutic based on this mechanism.

This study identifies OLADOs, a new class of eukaryotic decarboxylases involved in alkaloid biosynthesis, showing their parallel evolution from bacterial-like enzymes.

This study investigates how phosphorylation of SARS-CoV-2 Np's SRR linker affects its RNA binding and packaging functions through biophysical and biochemical analyses.

This paper identifies a peptide inhibitor of FhaC, a TpsB protein involved in bacterial virulence, showing it inhibits exoprotein secretion and reduces virulence correlates.

This study investigates the role of Tad pili in biofilm formation and surface sensing in Bradyrhizobium diazoefficiens, revealing their regulatory function and connection to c-di-GMP levels.

The paper identifies a CK2-FBXW11 kinase-E3 ubiquitin ligase cascade that regulates TDO2 stability through Trp-dependent phosphorylation shielding.

This study investigates Rho GTPase signaling in neuroblastoma, finding dysregulation associated with aggressiveness and identifying Cdc42 as a key regulator of differentiation and stemness.

The paper identifies a reproductive checkpoint in Drosophila that links ovarian relaxin to maternal gut plasticity via genetic sex and steroid signaling.

This study investigates how the K301M mutation in CD2AP disrupts its oligomerization and interaction with Podocin, contributing to nephrotic syndrome and FSGS.

The paper identifies lipid cargoes for half of analyzed human LTPs, revealing selectivity for lipid head groups and acyl chains and new lipid-organelle relationships.

This study compares the membrane-binding properties of arrestin-2 and arrestin-3 using biophysical and cell-based methods, revealing distinct lipid interaction mechanisms and activation dynamics.