biophysical modeling

This study identifies FBPase in Synechocystis as a monofunctional enzyme that supports heterotrophic growth without redox regulation, distinct from the bifunctional F/SBPase.

The paper identifies an inverted architecture of PIR proteins in Neurospora crassa and shows they function as cell wall stabilizers similar to yeast PIRs.

This study identifies VARP's role in forming endosomal supercomplexes with SNX27 and Retromer through direct interaction and biochemical reconstitution.

This study uses simulations to show how directional mechanical forces affect the unbinding of the NDC80 complex and other MAPs from microtubules, revealing design principles for load-dependent behavior.

This study identifies and characterizes archaeal pseudomurein biosynthesis genes using pangenomics, revealing evolutionary relationships and horizontal gene transfer events.

This study reveals how tension-induced structural changes in PIEZO2 channels lead to pore opening and ion conduction through dynamic conformational motions.

This study compares how two antipsychotics, chlorpromazine and clozapine, partition into and modify lipid membranes, revealing differences in their membrane remodeling effects despite differing D2R antagonism strengths.

The paper identifies long-range chromosomal loops spanning over 100 Mb and shows they form via multivalent binding, independent of known nuclear structures, suggesting a distributed mechanism for chromosome organization.

The paper identifies 45 new zymocin-like toxin genes in budding yeasts, showing their diversity and suggesting VLEs have been parasitic for over 300 million years.

The paper shows that electrostatic repulsion between the ribosome and nascent proteins inhibits co-translational folding, with net charge being the main determinant of folding thermodynamics.

This study evaluates native mass spectrometry as a method to screen and characterize RNA-targeting small molecules using RNA aptamers as a model.

This study shows that zinc availability in the tumor microenvironment affects anti-PD1 therapy response in CDKN2A-low tumors through macrophage phagocytosis.

HKU5 merbecoviruses use bat Pipistrellus abramus ACE2 and several artiodactyl ACE2s through a cryo-EM-defined binding mode distinct from other ACE2-using coronaviruses, showing independent evolution of ACE2 usage.

This study uses microbiome data mining to analyze microbial shifts in anaerobic digestion reactors during operation, failure, and restoration, identifying key taxa and operational parameters linked to stability.

This study develops a continuum model to explain how viscoelastic interactions between the cytoskeleton and plasma membrane modulate furrow invagination velocity during Drosophila embryo cellularization.

This study identifies multiple CCAN binding sites and shows that FACT localization to kinetochores depends on specific CCAN subcomplexes and is regulated by CK2 phosphorylation and DNA displacement.

This study identifies two mechanisms by which RECQ5 modulates RNA polymerase II transcription: attenuating elongation via the brake helix and forming a condensate scaffold matrix.

This study shows Klebsiella pneumoniae inhibits vasodilation by targeting eNOS post-translational modifications through its T6SS and capsule polysaccharide.

The paper develops a biophysical model of rod photoreceptors in mice to analyze the electroretinogram (ERG) a-wave, confirming that extracellular capacitive current and HCN1 channel activity shape the a-wave's relaxation and plateau.

This study investigates the structural and dynamic diversity of metabotropic glutamate receptor/beta-arrestin coupling using biophysical and structural methods, revealing new coupling stoichiometries and interaction mechanisms.

The paper identifies Ypl225w as a chaperone that facilitates GTP-driven co-translational folding of eEF1A by interacting with the ribosome and NAC.

The paper shows that left-right asymmetry in chick embryos begins before the formation of the left-right organizer, detected through biophysical analysis of cellular flows.

This study identifies and characterizes antimicrobial peptides in human colostrum using LC-HRMS and bioinformatics, revealing novel peptides with potential antifungal activity.

This study investigates the role of intimin/invasin in Aeromonas hydrophila virulence in Labeo rohita using in-silico methods, finding these proteins are present in only 6 of 53 strains and show significant binding affinity with human beta-integrins.

The paper analyzes subtelomeric satellite DNA in Cannabaceae species to understand their evolutionary origins and chromosomal localization.

This study evaluates how elevated IOP affects lamina cribrosa oxygenation using experimental and computational models in monkeys, finding significant hypoxia at IOP levels above 30 mmHg.

This study investigates how Atg18 binds to phosphatidylinositol-3,4,5-triphosphate, showing it clusters membranes and tethers opposing membranes.

This study identifies structural differences in PARP1 and PARP2 activation mechanisms, showing that PARP2 requires an active site alpha-helix to be unfolded for DNA damage-induced activation, unlike PARP1.

This study identifies novel defense systems and functional diversity within the RelE/ParE superfamily using bioinformatics analysis of BECR-fold toxins.

The paper develops a 4-shell current source density model to explain the biophysical basis of the in vivo electroretinogram in mice, showing it better explains ERG waveforms than the classic Rodieck-Ford model.