Search Results - "Miettinen, Markus S"

Headgroup Structure and Cation Binding in Phosphatidylserine Lipid Bilayers by Antila, Hanne, Buslaev, Pavel, Favela-Rosales, Fernando, Ferreira, Tiago M, Gushchin, Ivan, Javanainen, Matti, Kav, Batuhan, Madsen, Jesper J, Melcr, Josef, Miettinen, Markus S, Määttä, Jukka, Nencini, Ricky, Ollila, O. H. Samuli, Piggot, Thomas J

“…Phosphatidylserine (PS) is a negatively charged lipid type commonly found in eukaryotic membranes, where it interacts with proteins via nonspecific…”
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Toward Atomistic Resolution Structure of Phosphatidylcholine Headgroup and Glycerol Backbone at Different Ambient Conditions by Botan, Alexandru, Favela-Rosales, Fernando, Fuchs, Patrick F. J, Javanainen, Matti, Kanduč, Matej, Kulig, Waldemar, Lamberg, Antti, Loison, Claire, Lyubartsev, Alexander, Miettinen, Markus S, Monticelli, Luca, Määttä, Jukka, Ollila, O. H. Samuli, Retegan, Marius, Róg, Tomasz, Santuz, Hubert, Tynkkynen, Joona

“…Phospholipids are essential building blocks of biological membranes. Despite a vast amount of very accurate experimental data, the atomistic resolution…”
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Anomalous and normal diffusion of proteins and lipids in crowded lipid membranes by Javanainen, Matti, Hammaren, Henrik, Monticelli, Luca, Jeon, Jae-Hyung, Miettinen, Markus S, Martinez-Seara, Hector, Metzler, Ralf, Vattulainen, Ilpo

“…Lateral diffusion plays a crucial role in numerous processes that take place in cell membranes, yet it is quite poorly understood in native membranes…”
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Overlay databank unlocks data-driven analyses of biomolecules for all by Kiirikki, Anne M., Antila, Hanne S., Bort, Lara S., Buslaev, Pavel, Favela-Rosales, Fernando, Ferreira, Tiago Mendes, Fuchs, Patrick F. J., Garcia-Fandino, Rebeca, Gushchin, Ivan, Kav, Batuhan, Kučerka, Norbert, Kula, Patrik, Kurki, Milla, Kuzmin, Alexander, Lalitha, Anusha, Lolicato, Fabio, Madsen, Jesper J., Miettinen, Markus S., Mingham, Cedric, Monticelli, Luca, Nencini, Ricky, Nesterenko, Alexey M., Piggot, Thomas J., Piñeiro, Ángel, Reuter, Nathalie, Samantray, Suman, Suárez-Lestón, Fabián, Talandashti, Reza, Ollila, O. H. Samuli

“…Tools based on artificial intelligence (AI) are currently revolutionising many fields, yet their applications are often limited by the lack of suitable…”
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Similar Yet Different-Structural and Functional Diversity among Arabidopsis thaliana LEA_4 Proteins by Knox-Brown, Patrick, Rindfleisch, Tobias, Günther, Anne, Balow, Kim, Bremer, Anne, Walther, Dirk, Miettinen, Markus S, Hincha, Dirk K, Thalhammer, Anja

“…The importance of intrinsically disordered late embryogenesis abundant (LEA) proteins in the tolerance to abiotic stresses involving cellular dehydration is…”
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Stable Polyglutamine Dimers Can Contain β-Hairpins with Interdigitated Side Chains—But Not α-Helices, β-Nanotubes, β-Pseudohelices, or Steric Zippers by Miettinen, Markus S., Monticelli, Luca, Nedumpully-Govindan, Praveen, Knecht, Volker, Ignatova, Zoya

“…A common thread connecting nine fatal neurodegenerative protein aggregation diseases is an abnormally expanded polyglutamine tract found in the respective…”
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Bilayer Membranes with Frequent Flip-Flops Have Tensionless Leaflets by Miettinen, Markus S, Lipowsky, Reinhard

“…Biomembranes are built up from lipid bilayers with two leaflets that typically differ in their lipid composition. Each lipid molecule stays within one leaflet…”
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The glycolipid GM1 reshapes asymmetric biomembranes and giant vesicles by curvature generation by Dasgupta, Raktim, Miettinen, Markus S., Fricke, Nico, Lipowsky, Reinhard, Dimova, Rumiana

“…The ganglioside GM1 is present in neuronal membranes at elevated concentrations with an asymmetric spatial distribution. It is known to generate curvature and…”
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Architecture of Polyglutamine-containing Fibrils from Time-resolved Fluorescence Decay by Röthlein, Christoph, Miettinen, Markus S., Borwankar, Tejas, Bürger, Jörg, Mielke, Thorsten, Kumke, Michael U., Ignatova, Zoya

“…The disease risk and age of onset of Huntington disease (HD) and nine other repeat disorders strongly depend on the expansion of CAG repeats encoding…”
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Structure of POPC Lipid Bilayers in OPLS3e Force Field by Kurki, Milla, Poso, Antti, Bartos, Piia, Miettinen, Markus S.

“…It is crucial for molecular dynamics simulations of biomembranes that the force field parameters give a realistic model of the membrane behavior. In this…”
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Molecular Dynamics Simulations Show That Short Peptides Can Drive Synthetic Cell Division by Binding to the Inner Membrane Leaflet by Steinkühler, Jan, Lipowsky, Reinhard, Miettinen, Markus S

“…An important functionality of lifelike "synthetic cells" is to mimic cell division. Currently, specialized proteins that induce membrane fission in living…”
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Using Open Data to Rapidly Benchmark Biomolecular Simulations: Phospholipid Conformational Dynamics by Antila, Hanne S, M. Ferreira, Tiago, Ollila, O. H. Samuli, Miettinen, Markus S

“…Molecular dynamics (MD) simulations are widely used to monitor time-resolved motions of biomacromolecules, although it often remains unknown how closely the…”
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Quantitative Comparison against Experiments Reveals Imperfections in Force Fields’ Descriptions of POPC–Cholesterol Interactions by Javanainen, Matti, Heftberger, Peter, Madsen, Jesper J., Miettinen, Markus S., Pabst, Georg, Ollila, O. H. Samuli

“…Cholesterol is a central building block in biomembranes, where it induces orientational order, slows diffusion, renders the membrane stiffer, and drives domain…”
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Rotational decoupling between the hydrophilic and hydrophobic regions in lipid membranes by Antila, Hanne S., Wurl, Anika, Ollila, O.H. Samuli, Miettinen, Markus S., Ferreira, Tiago M.

“…Cells use homeostatic mechanisms to ensure an optimal composition of distinct types of lipids in cellular membranes. The hydrophilic region of biological lipid…”
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Evaluating Polarizable Biomembrane Simulations against Experiments by Antila, Hanne S., Dixit, Sneha, Kav, Batuhan, Madsen, Jesper J., Miettinen, Markus S., Ollila, O. H. Samuli

“…Owing to the increase of available computational capabilities and the potential for providing a more accurate description, polarizable molecular dynamics force…”
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Static charges cannot drive a continuous flow of water molecules through a carbon nanotube by Karttunen, Mikko, Wong-ekkabut, Jirasak, Miettinen, Markus S, Dias, Cristiano

“…Arising from: Gong X. J. et al. Nature Nanotech. 2, 709-712 (2007)…”
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Photocontrol of the β‑Hairpin Polypeptide Structure through an Optimized Azobenzene-Based Amino Acid Analogue by Parlato, Raffaella, Volarić, Jana, Lasorsa, Alessia, Bagherpoor Helabad, Mahdi, Kobauri, Piermichele, Jain, Greeshma, Miettinen, Markus S., Feringa, Ben L., Szymanski, Wiktor, van der Wel, Patrick C. A.

“…A family of neurodegenerative diseases, including Huntington’s disease (HD) and spinocerebellar ataxias, are associated with an abnormal polyglutamine (polyQ)…”
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Inverse Conformational Selection in Lipid–Protein Binding by Bacle, Amélie, Buslaev, Pavel, Garcia-Fandino, Rebeca, Favela-Rosales, Fernando, Mendes Ferreira, Tiago, Fuchs, Patrick F. J, Gushchin, Ivan, Javanainen, Matti, Kiirikki, Anne M, Madsen, Jesper J, Melcr, Josef, Milán Rodríguez, Paula, Miettinen, Markus S, Ollila, O. H. Samuli, Papadopoulos, Chris G, Peón, Antonio, Piggot, Thomas J, Piñeiro, Ángel, Virtanen, Salla I

“…Interest in lipid interactions with proteins and other biomolecules is emerging not only in fundamental biochemistry but also in the field of nanobiotechnology…”
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Membrane Proteins Diffuse as Dynamic Complexes with Lipids by Niemelä, Perttu S, Miettinen, Markus S, Monticelli, Luca, Hammaren, Henrik, Bjelkmar, Pär, Murtola, Teemu, Lindahl, Erik, Vattulainen, Ilpo

“…We describe how membrane proteins diffuse laterally in the membrane plane together with the lipids surrounding them. We find a number of intriguing phenomena…”
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Functional in vitro diversity of an intrinsically disordered plant protein during freeze–thawing is encoded by its structural plasticity by Hernández‐Sánchez, Itzell, Rindfleisch, Tobias, Alpers, Jessica, Dulle, Martin, Garvey, Christopher J., Knox‐Brown, Patrick, Miettinen, Markus S., Nagy, Gergely, Pusterla, Julio M., Rekas, Agata, Shou, Keyun, Stadler, Andreas M., Walther, Dirk, Wolff, Martin, Zuther, Ellen, Thalhammer, Anja

“…Intrinsically disordered late embryogenesis abundant (LEA) proteins play a central role in the tolerance of plants and other organisms to dehydration brought…”
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