Machine learning for protein folding and dynamics.
Sign Up to like & getrecommendations! Published in 2019 at "Current opinion in structural biology"
DOI: 10.1016/j.sbi.2019.12.005
Abstract: Many aspects of the study of protein folding and dynamics have been affected by the recent advances in machine learning. Methods for the prediction of protein structures from their sequences are now heavily based on… read more here.
Keywords: machine; machine learning; protein folding; folding dynamics ... See more keywords
Three-dimensional folding dynamics of the Xenopus tropicalis genome
Sign Up to like & getrecommendations! Published in 2021 at "Nature Genetics"
DOI: 10.1038/s41588-021-00878-z
Abstract: Animal interphase chromosomes are organized into topologically associating domains (TADs). How TADs are formed is not fully understood. Here, we combined high-throughput chromosome conformation capture and gene silencing to obtain insights into TAD dynamics in… read more here.
Keywords: three dimensional; folding dynamics; xenopus tropicalis; dynamics xenopus ... See more keywords
Folding Dynamics and Its Intermittency in Turbulence.
Sign Up to like & getrecommendations! Published in 2023 at "Physical review letters"
DOI: 10.1103/physrevlett.130.154001
Abstract: Fluid elements deform in turbulence by stretching and folding. In this Letter, by projecting the material deformation tensor onto the largest stretching direction, we depict the dynamics of folding through the evolution of the material… read more here.
Keywords: folding dynamics; fluid elements; turbulence; curvature ... See more keywords
Protein Folding Dynamics in the Space of Experimentally Measured Variables: Turbulence Phenomena
Sign Up to like & getrecommendations! Published in 2018 at "Journal of Applied Mechanics and Technical Physics"
DOI: 10.1134/s0021894418050085
Abstract: The process of folding of villin subdomain HP-35 has been studied using the method of molecular dynamics. To characterize protein conformations, two variables are introduced that correspond to the distances between fluorophores in experiments on… read more here.
Keywords: turbulence; protein folding; space experimentally; folding dynamics ... See more keywords
The Wako-Saitô-Muñoz-Eaton Model for Predicting Protein Folding and Dynamics
Sign Up to like & getrecommendations! Published in 2022 at "Molecules"
DOI: 10.3390/molecules27144460
Abstract: Despite the recent advances in the prediction of protein structures by deep neutral networks, the elucidation of protein-folding mechanisms remains challenging. A promising theory for describing protein folding is a coarse-grained statistical mechanical model called… read more here.
Keywords: protein folding; wsme model; folding dynamics; wako sait ... See more keywords
Folding Dynamics of 3,4,3-LI(1,2-HOPO) in Its Free and Bound State with U4+ Implicated by MD Simulations
Sign Up to like & getrecommendations! Published in 2022 at "Molecules"
DOI: 10.3390/molecules27238151
Abstract: The octadentate hydroxypyridonate ligand 3,4,3-LI(1,2-HOPO) (t-HOPO) shows strong binding affinity with actinide cations and is considered as a promising decorporation agent used to eliminate in vivo actinides, while its dynamics in its unbound and bound… read more here.
Keywords: hopo free; state; folding dynamics; dynamics hopo ... See more keywords