biophysical modeling

This study investigates the differential roles of PANX1 and PANX3 in cutaneous squamous cell carcinoma, finding PANX1 promotes tumorigenesis while PANX3 suppresses it.

The paper shows CRISPR-Cas12a bends DNA to destabilize base pairs during target recognition, similar to CRISPR-Cas9 but with different hybridization directionality.

This paper identifies novel class II bacteriocins in Streptococcus salivarius using bioinformatics and synthetic biology, revealing 50 candidates active against Gram-positive pathogens.

This paper shows RqcH enables bacterial survival without non-stop ribosome rescue factors by tagging stalled peptides for removal, and reveals widespread conservation of ribosome rescue pathways across bacterial species.

This study uses molecular dynamics simulations to analyze the conformational behavior of SARS-CoV-2 Mpro loops and their relationship with substrate binding and allosteric communication.

The paper investigates IspE kinase homologs from pathogenic bacteria, identifies structural differences affecting inhibitor binding, and highlights a hydrophobic pocket critical for inhibitor specificity in Acinetobacter baumannii.

This study uses molecular dynamics simulations to investigate how protonation affects the conformational changes of influenza hemagglutinin at low pH, revealing structural shifts linked to receptor binding and immune evasion.

This study identifies how arrestin2 interacts with clathrin and AP2 during CCR5 endocytosis, showing that AP2 binding depends on arrestin2 activation and phosphorylation levels.

This study identifies the minimal adhesive strategy of Toxoplasma gondii tachyzoites for high-speed motility using nanoscale imaging and biochemical assays.

The paper identifies centromeric repeat diversity in hop that contributes to non-Mendelian segregation patterns and genome instability during meiosis.

This study uses MD simulations to show that self-crowding in FUS LCD condensates slows large-amplitude motions more than small-scale motions.

The paper identifies Daedalus as a Diptera-specific protein that controls Zucchini endonucleolysis in piRNA biogenesis independently of exonucleases.

This study identifies how CAMSAP3 dimerizes via its C-terminal alpha-helix to stabilize non-centrosomal microtubule minus ends through enhanced CKK domain binding.

This study identifies AMAN-3 as a Golgi α-mannosidase essential for tri-fucosylation of nematode N-glycans, which affects growth and behavior in C. elegans.

The paper uses multi-omics analysis to show OGT regulates aneuploidy by fine-tuning multiple cellular pathways through O-GlcNAcylation.

This paper identifies the RNA binding specificity of Hrp48, showing it binds the msl-2 mRNA 3' UTR independently of Sxl and Unr downstream of their binding sites.

This study shows that mechanical confinement in Hydra regeneration can lead to multiaxial body plans due to nematic topological defects in actomyosin fibers, challenging the idea that axial patterning relies solely on biochemical gradients.

This study investigates the differential roles of RA1 and RA2 domains in Drosophila Canoe during morphogenesis, showing RA1 is critical for function while RA2 has a more limited role.

The paper identifies topological rearrangements in the HerA-DUF complex that activate the anti-phage defense system, challenging the idea that oligomerization alone is sufficient for immune signaling.

This study investigates the structure and function of the Fatty Acid Kinase complex in Staphylococcus aureus using modeling, biochemical, and cell-based approaches, revealing key residues and interactions essential for its activity.

This study uses molecular dynamics simulations to investigate how 2-deoxy-ATP modifies the structure and dynamics of myosin in the interacting heads motif state.

This study shows that clustering of glycine receptors enhances their ion affinity through electrostatic effects, offering insights into ion channel function and drug development.

This paper identifies how the phage-encoded inhibitor OrbA disrupts the BREX defense system in Vibrio cholerae by directly binding to the BrxC ATPase component.

ProEnd identifies and catalogs HbYX motif-containing proteins across diverse organisms, revealing their evolutionary conservation and potential role in proteasome interactions.

The paper identifies CPKs/ECA1 as an intracellular calcium sensory module that regulates cytosolic calcium and ABA homeostasis to enhance plant osmotic stress tolerance.

This study investigates how thioamide substitutions in SpyTag affect ligation kinetics with SpyCatcher, showing both faster and slower complex formation depending on substitution position.

This study shows that Ubp2, a DUB, is redox-regulated during oxidative stress in yeast, controlling K63-ub chains on ribosomes and restoring translation post-stress.

The paper identifies a conserved linker protein from Chlorella that can phase separate Rubisco in Chlamydomonas and some plants, enabling cross-species pyrenoid formation.

The paper provides proteomic evidence that fibrinaloid microclots involve cross-seeding of non-fibrin proteins into amyloid structures, suggesting a complex mechanism beyond simple entrapment.