Improved coarse‐grained model for studying sequence dependent phase separation of disordered proteins
Sign Up to like & getrecommendations! Published in 2021 at "Protein Science"
DOI: 10.1002/pro.4094
Abstract: We present improvements to the hydropathy scale (HPS) coarse‐grained (CG) model for simulating sequence‐specific behavior of intrinsically disordered proteins (IDPs), including their liquid–liquid phase separation (LLPS). The previous model based on an atomistic hydropathy scale… read more here.
Keywords: phase separation; model; sequence; hydropathy ... See more keywords
Advanced Protein Alignments Based on Sequence, Structure and Hydropathy Profiles; The Paradigm of the Viral Polymerase Enzyme
Sign Up to like & getrecommendations! Published in 2017 at "Mathematics in Computer Science"
DOI: 10.1007/s11786-016-0287-8
Abstract: One of the major drawbacks of modern bioinformatics is the fact that protein similarity and blast searches are still based on primary amino acid sequence rather than structural data. Primary sequence searches are inadequate, as… read more here.
Keywords: protein; alignments based; sequence structure; hydropathy ... See more keywords
An Affordable Topography-Based Protocol for Assigning a Residue's Character on a Hydropathy (PARCH) Scale.
Sign Up to like & getrecommendations! Published in 2023 at "Journal of chemical theory and computation"
DOI: 10.1021/acs.jctc.3c00106
Abstract: The hydropathy of proteins or quantitative assessment of protein-water interactions has been a topic of interest for decades. Most hydropathy scales use a residue-based or atom-based approach to assign fixed numerical values to the 20… read more here.
Keywords: protocol assigning; topography; hydropathy; parch scale ... See more keywords
Synthesis of amino acid-derived vinyl polymers with precisely controlled hydropathy and their thermoresponsive behavior in water
Sign Up to like & getrecommendations! Published in 2023 at "Polymer Chemistry"
DOI: 10.1039/d3py00353a
Abstract: Synthesis of amino acid-derived vinyl polymers with precisely controlled hydropathy by ultra-rapid reversible addition fragmentation chain transfer polymerization and their thermoresponsive behavior in water. read more here.
Keywords: acid derived; vinyl polymers; derived vinyl; amino acid ... See more keywords
Insights into eukaryotic evolution from transmembrane domain lengths
Sign Up to like & getrecommendations! Published in 2018 at "Journal of Biomolecular Structure and Dynamics"
DOI: 10.1080/07391102.2017.1345699
Abstract: Biological membranes, comprised of proteins anchored by their trans-membrane domains (TMDs) creating a semi-permeable phase with lipid constituents, serve as ‘checkposts’ for not only intracellular trafficking in eukaryotic cells but also for material transactions of… read more here.
Keywords: evolutionary time; evolution; tmd lengths; time ... See more keywords
Interplay of Hydropathy and Heterogeneous Diffusion in the Molecular Transport within Lamellar Lipid Mesophases
Sign Up to like & getrecommendations! Published in 2023 at "Pharmaceutics"
DOI: 10.3390/pharmaceutics15020573
Abstract: Lipid mesophases are being intensively studied as potential candidates for drug-delivery purposes. Extensive experimental characterization has unveiled a wide palette of release features depending on the nature of the host lipids and of the guest… read more here.
Keywords: interplay hydropathy; lipid mesophases; hydropathy heterogeneous; molecular transport ... See more keywords