Synthesis, characterization and protein-association of dicyanomethylene squaraine dyes
Sign Up to like & getrecommendations! Published in 2017 at "Dyes and Pigments"
DOI: 10.1016/j.dyepig.2017.07.070
Abstract: Abstract We prepared several new dicyanomethylene squaraine dyes derived from indolenine, benzothiazole and benzoselenazole, with different substituent groups. All the obtained dyes display intense and narrow absorption bands and bright fluorescence emission in the Vis/NIR… read more here.
Keywords: characterization protein; protein association; squaraine dyes; dicyanomethylene squaraine ... See more keywords
GB1 Dimerization in Crowders: A Multiple Resolution Approach
Sign Up to like & getrecommendations! Published in 2023 at "Journal of chemical information and modeling"
DOI: 10.1021/acs.jcim.3c00012
Abstract: In-cell protein-protein association, which is crucial in enzyme catalysis and polymerization, occurs in an environment that is highly heterogeneous and crowded. The crowder molecules exclude the reactant molecules from occupying certain regions of the cell,… read more here.
Keywords: resolution model; crowder; protein association; dimerization ... See more keywords
On Computing Equilibrium Binding Constants for Protein-Protein Association in Membranes.
Sign Up to like & getrecommendations! Published in 2022 at "Journal of chemical theory and computation"
DOI: 10.1021/acs.jctc.2c00106
Abstract: Protein association in lipid membranes is fundamental to membrane protein function and of great biomedical relevance. All-atom and coarse-grained models have been extensively used to understand the protein-protein interactions in the membrane and to compute… read more here.
Keywords: protein protein; equilibrium; protein association; dimensional collective ... See more keywords
Complete protein–protein association kinetics in atomic detail revealed by molecular dynamics simulations and Markov modelling
Sign Up to like & getrecommendations! Published in 2017 at "Nature Chemistry"
DOI: 10.1038/nchem.2785
Abstract: Protein–protein association is fundamental to many life processes. However, a microscopic model describing the structures and kinetics during association and dissociation is lacking on account of the long lifetimes of associated states, which have prevented… read more here.
Keywords: protein; molecular dynamics; protein protein; association ... See more keywords
Predicting Protein–protein Association Rates using Coarse-grained Simulation and Machine Learning
Sign Up to like & getrecommendations! Published in 2017 at "Scientific Reports"
DOI: 10.1038/srep46622
Abstract: Protein–protein interactions dominate all major biological processes in living cells. We have developed a new Monte Carlo-based simulation algorithm to study the kinetic process of protein association. We tested our method on a previously used… read more here.
Keywords: protein; machine learning; association rates; protein protein ... See more keywords
GLIDER: function prediction from GLIDE-based neighborhoods
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btac322
Abstract: Abstract Motivation Protein function prediction, based on the patterns of connection in a protein–protein interaction (or association) network, is perhaps the most studied of the classical, fundamental inference problems for biological networks. A highly successful… read more here.
Keywords: protein protein; function prediction; glider; protein association ... See more keywords