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Atomistic Simulations and Analysis of Peripheral Membrane Proteins with Model Lipid Bilayers.
Methods Mol Biol
December 2024
Chemical and Biological Engineering Department, School of Engineering and Applied Sciences, State University of New York at Buffalo, Buffalo, NY, USA.
All-atom molecular dynamics (AAMD) is a computational technique that predicts the movement of particles based on the intermolecular forces acting on the system. It enables the study of biological systems at atomic detail, complements observations from experiments, and can help the selection of experimental targets. Here, we describe the applications of MD simulations to study the interaction between peripheral membrane proteins and lipid bilayers.
View Article and Find Full Text PDFEndoplasmic reticulum-anchored proteins in control of AUXIN RESPONSE FACTOR condensation.
Dev Cell
December 2024
Department of Plant and Crops, Fac Bioscience Engineering, Ghent University, Ghent, Belgium. Electronic address:
Sequestration of AUXIN RESPONSE FACTOR (ARF) transcription factors in cytoplasmic condensates represents a specialized mechanism for modulating cellular auxin responsiveness. In this issue of Developmental Cell, Xuan et al. show that MULTIPLE C2-DOMAIN AND TRANSMEMBRANE REGION PROTEIN (MCTP) proteins stimulate lateral root development by antagonizing ARF7 and ARF19 condensation.
View Article and Find Full Text PDFDC-T cell power couples in rheumatoid arthritis joints.
Immunity
December 2024
Division of Rheumatology, Inflammation, and Immunity, Brigham and Women's Hospital, Harvard Medical School, Boston, MA 02115, USA. Electronic address:
Rheumatoid arthritis (RA) is driven by antigen-specific T cell responses targeting the joints. MacDonald et al. define the range of dendritic cell (DC) populations within joints of RA patients and highlight specific iDC3 and DC2 populations enriched in inflamed RA synovium that promote T cell activation as well as tolerogenic AXL DC2s in healthy synovium that are lost in RA.
View Article and Find Full Text PDFJanus-like behavior of intrinsically disordered regions in reticulophagy.
Autophagy
January 2025
School of Medicine, Institute of Biochemistry II, Goethe University Frankfurt, Frankfurt am Main, Germany.
Intrinsically disordered regions (IDRs) are crucial to homeostatic and organellar remodeling pathways. In reticulophagy/ER-phagy, long cytosolic IDR-containing receptors (e.g.
View Article and Find Full Text PDFTools to Score and Predict Cholesterol-Protein Interactions.
J Med Chem
December 2024
Department of Pharmaceutical Sciences, University of Illinois Chicago, Chicago, Illinois 60607, United States.
Cholesterol is structurally distinct from other lipids, which confers it with singular roles in membrane organization and protein function. As a signaling molecule, cholesterol engages in discrete interactions with transmembrane, peripheral, and certain soluble proteins to control cellular responses. Accordingly, the cholesterol-protein interface is central to cholesterol-related diseases and is an essential consideration in drug design.
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