Cofilin is an actin depolymerizing protein found widely distributed in animals and plants. We have used electron cryomicroscopy and helical reconstruction to identify its binding site on actin filaments. Cofilin binds filamentous (F)-actin cooperatively by bridging two longitudinally associated actin subunits. The binding site is centered axially at subdomain 2 of the lower actin subunit and radially at the cleft between subdomains 1 and 3 of the upper actin subunit. Our work has revealed a totally unexpected (and unique) property of cofilin, namely, its ability to change filament twist. As a consequence of this change in twist, filaments decorated with cofilin have much shorter 'actin crossovers' ( approximately 75% of those normally observed in F-actin structures). Although their binding sites are distinct, cofilin and phalloidin do not bind simultaneously to F-actin. This is the first demonstration of a protein that excludes another actin-binding molecule by changing filament twist. Alteration of F-actin structure by cofilin/ADF appears to be a novel mechanism through which the actin cytoskeleton may be regulated or remodeled.
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http://dx.doi.org/10.1083/jcb.138.4.771 | DOI Listing |
JACS Au
January 2025
Applied Molecular Enzyme Chemistry, Department of Biotechnology and Biomedicine, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark.
Interfacial enzyme catalysis is widespread in both nature and industry. Granular starch is a sustainable and abundant raw material for which a rigorous correlation of the surface structure with enzymatic degradation is lacking. Here pullulanase-catalyzed debranching of 12 granular starches varying in amylopectin contents and branch chain contents and lengths is shown to present a biphasic relationship characteristic of the Sabatier principle.
View Article and Find Full Text PDFRSC Chem Biol
January 2025
Department of Molecular Biosciences, University of Texas Austin Texas USA
RNA polymerase II (Pol II) regulates eukaryotic gene expression through dynamic phosphorylation of its C-terminal domain (CTD). Phosphorylation at Ser2 and Thr4 on the CTD is crucial for RNA 3' end processing and facilitating the recruitment of cleavage and termination factors. However, the transcriptional roles of most CTD-binding proteins remain poorly understood.
View Article and Find Full Text PDFAppl Magn Reson
October 2024
Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0520 USA.
Unlabelled: Temperature-dependent DEER effects are observed as a function of methyl rotation by either leucine- or nitroxide-specific protonated methyl groups in an otherwise deuterated background. Both species induce a site-specific enhancement in the apparent relaxation of the paramagnetic nitroxide label. The presence of a single protonated methyl group in close proximity (4-10 Å) to only one of the two nitroxide rotamer ensembles in AviTagged immunoglobulin-binding B domain of protein A results in a selective and substantial decrease in , manifested by differential decay of the peak intensities in the bimodal distance distribution as a function of the total dipolar evolution time, temperature, or both.
View Article and Find Full Text PDFPhys Chem Chem Phys
January 2025
School of Science, Constructor University, Bremen 28359, Germany.
We present a machine learning (ML) workflow for optimizing electronic band structures using density functional tight binding (DFTB) to replicate the results of costly hybrid functional calculations. The workflow is trained on carbon, silicon, and silicon carbide systems, encompassing bulk, slab, and defect geometries. Our method accurately reproduces hybrid functional results by applying a DFTB-ML scheme to train and predict the scaling parameters of two-center integrals and on-site energies, which is particularly accurate for electronic band structures near the Fermi energy.
View Article and Find Full Text PDFFuture Microbiol
January 2025
Department of Biochemistry & Molecular Biology, School of Medicine, Jiangsu University, Zhenjiang, Jiangsu, China.
Aim: This study aims to explore the role of propionylation at the K32 residue of the global regulator Fis in serovar Typhi (. Typhi) and its influence on the pathogenicity of the bacteria.
Materials & Methods: Bacterial strains were cultured in media with sodium propionate supplementation.
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