Results 31 to 40 of about 3,454,137 (301)
Protein dynamics and conformational selection in bidirectional signal transduction
BMC Biology, 2012 Protein conformational dynamics simultaneously allow promiscuity and specificity in binding. The multiple conformations of the free EphA4 ligand-binding domain observed in two new EphA4 crystal structures provide a unique insight into the conformational ...
Nussinov Ruth, Ma Buyong
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Molecular dynamics simulation study of the binding of purine bases to the aptamer domain of the guanine sensing riboswitch [PDF]
, 2009 Riboswitches are a novel class of genetic control elements that function through the direct interaction of small metabolite molecules with structured RNA elements.
Stock, Gerhard +4 more
core +1 more source
DynaRepo: the repository of macromolecular conformational dynamics. [PDF]
Nucleic Acids ResAbstract Proteins, RNA, and DNA are central to virtually all cellular processes, often assembling into macromolecular complexes to perform their functions. While these molecules are inherently dynamic, most methods for studying their mechanisms focus on static structures.
Mokhtari O +3 more
europepmc +3 more sources
Conformal dynamics of precursors to fracture [PDF]
Europhysics Letters (EPL), 2003 An exact integro-differential equation for the conformal map from the unit circle to the boundary of an evolving cavity in a stressed 2-dimensional solid is derived. This equation provides an accurate description of the dynamics of precursors to fracture when surface diffusion is important.
Barra, F, Herrera, M, Procaccia, I
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Dimerization and ligand binding in tyrosylprotein sulfotransferase-2 are influenced by molecular motions [PDF]
, 2016 Tyrosylprotein sulfotransferase-2 catalyses important, but a less explored posttranslational modification of proteins. The crystallographic structure of the full complex, containing the enzyme, PAPS cofactor and the peptide substrate (WTFC) revealed ...
Karabencheva-Christova, T. G. +10 more
core +1 more source
Dynamic and conformational switching in proteins [PDF]
Biopolymers, 2020 AbstractUsing bioinformatic methods for treating protein dynamics, developed in earlier work, we study the relationship between sequence mobility and dynamics in proteins. It is shown that sequence mobility drives a transition between two dynamic regimes in proteins, and that the specific details of this transition differ qualitatively between α ...
H.A. Scheraga, S. Rackovsky
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ABCE1 Controls Ribosome Recycling by an Asymmetric Dynamic Conformational Equilibrium
Cell Reports, 2019 Summary: The twin-ATPase ABCE1 has a vital function in mRNA translation by recycling terminated or stalled ribosomes. As for other functionally distinct ATP-binding cassette (ABC) proteins, the mechanochemical coupling of ATP hydrolysis to conformational
Giorgos Gouridis +7 more
doaj +1 more source
Medicine in Novel Technology and Devices, 2019 The functions and activities of proteins are closely related to their structures and dynamics, and their interactions with ligands. Knowledge of the mechanistic events of proteins’ conformational transitions and interactions with ligands is crucially ...
Dechang Li, Baohua Ji
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Mapping the conformational energy landscape of Abl kinase using ClyA nanopore tweezers
Nature Communications, 2022 Quantitative characterization of kinase conformational dynamics remains challenging. Here, the authors show that protein nanopore tweezers allow analyzing the conformational energy landscape and ligand binding of the Abl kinase domain.
Fanjun Li +4 more
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Distance-Based Configurational Entropy of Proteins from Molecular Dynamics Simulations. [PDF]
PLoS ONE, 2015 Estimation of configurational entropy from molecular dynamics trajectories is a difficult task which is often performed using quasi-harmonic or histogram analysis.
Federico Fogolari +8 more
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