Bibliografías temáticas / Proteins crowding

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Literatura académica sobre el tema "Proteins crowding"

Autor: Grafiati
Publicado: 10 de marzo de 2023
Última modificación: 31 de julio de 2025

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Artículos de revistas sobre el tema "Proteins crowding"

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Zhou, Huan-Xiang. "Crowding Effects of Membrane Proteins." Journal of Physical Chemistry B 113, no. 23 (2009): 7995–8005. http://dx.doi.org/10.1021/jp8107446.

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Rhoades, Elizabeth. "Proteins: Disorder, Folding, and Crowding." Biophysical Journal 117, no. 1 (2019): 3–4. http://dx.doi.org/10.1016/j.bpj.2019.06.014.

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Wei, Jiachen, and Fan Song. "Association equilibria for proteins interacted with crowders of short-range attraction in crowded environment." International Journal of Modern Physics B 31, no. 03 (2017): 1750007. http://dx.doi.org/10.1142/s0217979217500072.

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Based on a very simple coarse-grained colloidal model, here we implement an effective hard-sphere theory and numerical simulation to capture the general features of the association equilibria for globular proteins in crowded environment. We measure the activity coefficient, i.e., the deviation from ideal behavior of protein solution, and the crowding factor, i.e., the contribution of crowders to the association equilibria, for proteins in macromolecular crowding. The results show that the association balance in macromolecular crowding depends sensitively on the magnitude of protein–crowder att
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Snead, Wilton T., Carl C. Hayden, Avinash K. Gadok, et al. "Membrane fission by protein crowding." Proceedings of the National Academy of Sciences 114, no. 16 (2017): E3258—E3267. http://dx.doi.org/10.1073/pnas.1616199114.

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Membrane fission, which facilitates compartmentalization of biological processes into discrete, membrane-bound volumes, is essential for cellular life. Proteins with specific structural features including constricting rings, helical scaffolds, and hydrophobic membrane insertions are thought to be the primary drivers of fission. In contrast, here we report a mechanism of fission that is independent of protein structure—steric pressure among membrane-bound proteins. In particular, random collisions among crowded proteins generate substantial pressure, which if unbalanced on the opposite membrane
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Zosel, Franziska, Andrea Soranno, Karin J. Buholzer, Daniel Nettels, and Benjamin Schuler. "Depletion interactions modulate the binding between disordered proteins in crowded environments." Proceedings of the National Academy of Sciences 117, no. 24 (2020): 13480–89. http://dx.doi.org/10.1073/pnas.1921617117.

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Intrinsically disordered proteins (IDPs) abound in cellular regulation. Their interactions are often transitory and highly sensitive to salt concentration and posttranslational modifications. However, little is known about the effect of macromolecular crowding on the interactions of IDPs with their cellular targets. Here, we investigate the influence of crowding on the interaction between two IDPs that fold upon binding, with polyethylene glycol as a crowding agent. Single-molecule spectroscopy allows us to quantify the effects of crowding on a comprehensive set of observables simultaneously:
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Horton, Margaret R., Felix Höfling, Joachim O. Rädler, and Thomas Franosch. "Development of anomalous diffusion among crowding proteins." Soft Matter 6, no. 12 (2010): 2648. http://dx.doi.org/10.1039/b924149c.

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Dias, Rita S. "Role of Protein Self-Association on DNA Condensation and Nucleoid Stability in a Bacterial Cell Model." Polymers 11, no. 7 (2019): 1102. http://dx.doi.org/10.3390/polym11071102.

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Bacterial cells do not have a nuclear membrane that encompasses and isolates the genetic material. In addition, they do not possess histone proteins, which are responsible for the first levels of genome condensation in eukaryotes. Instead, there is a number of more or less specific nucleoid-associated proteins that induce DNA bridging, wrapping and bending. Many of these proteins self-assemble into oligomers. The crowded environment of cells is also believed to contribute to DNA condensation due to excluded volume effects. Ribosomes are protein-RNA complexes found in large concentrations in th
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Mukherji, Sutapa. "Run-length distribution of self-assembling cargos in crowded environments." Journal of Statistical Mechanics: Theory and Experiment 2025, no. 2 (2025): 023205. https://doi.org/10.1088/1742-5468/adab6f.

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Abstract Intracellular transport, carried out by motor proteins, is crucial for numerous biological functions of the cell. Cytoskeletal motor proteins such as kinesins and dyneins move on the biopolymer, microtubule, carrying different kinds of biomolecules as cargo to deliver these at required destinations. Such transport is often impeded by a crowded environment along the microtubule due to other motor proteins and various cellular organelles. Here, we study the motion of a self-assembling cargo that, during its translocation, can associate kinesins bound to the microtubules. This strategy i
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Banks, Daniel S., and Cécile Fradin. "Anomalous Diffusion of Proteins Due to Molecular Crowding." Biophysical Journal 89, no. 5 (2005): 2960–71. http://dx.doi.org/10.1529/biophysj.104.051078.

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Makowski, Lee, Diane J. Rodi, Suneeta Mandava, David D. L. Minh, David B. Gore, and Robert F. Fischetti. "Molecular Crowding Inhibits Intramolecular Breathing Motions in Proteins." Journal of Molecular Biology 375, no. 2 (2008): 529–46. http://dx.doi.org/10.1016/j.jmb.2007.07.075.

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Tesis sobre el tema "Proteins crowding"

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Malik, Ashima. "Proteins in crowding and confinement." Thesis, IIT Delhi, 2016. http://eprint.iitd.ac.in:80//handle/2074/8190.

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Candotti, Michela. "Environment matters : the impact of urea and macromolecular crowding on proteins." Doctoral thesis, Universitat de Barcelona, 2016. http://hdl.handle.net/10803/403839.

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This work aims to analytically understand the impact of two diametric opposite environments on protein structure and dynamics and compared them to the most common solvent on earth: water. The first environment is a popular denaturing solution (urea 8M), which has served for years in protein-science laboratories to investigate protein stability; still many open questions regarding its mechanism of action remained unclear. The second environment instead moves towards a more physiological representation of proteins. The cell interior, in fact, is a crowded solution highly populated prevalently b
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Toyooka, Tsuguyoshi. "Photoreaction Dynamics of Blue Light Sensor Proteins and Application to Crowding Environments." 京都大学 (Kyoto University), 2011. http://hdl.handle.net/2433/142398.

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Roos, Matthias [Verfasser], Kay [Akademischer Betreuer] Saalwächter, Wolfgang [Akademischer Betreuer] Paul, and Frank [Akademischer Betreuer] Schreiber. "Brownian dynamics of globular proteins under macromolecular crowding as studied by NMR : [kumulative Dissertation] / Matthias Roos ; Kay Saalwächter, Wolfgang Paul, Frank Schreiber." Halle, 2016. http://d-nb.info/1123998612/34.

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Ping, Guanghui Yuan Jian-Min. "Effects of confinement and macromolecular crowding on protein stability and protein folding dynamics /." Philadelphia, Pa. : Drexel University, 2005. http://dspace.library.drexel.edu/handle/1860/491.

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Li, X. F. "Investigation of protein-protein interactions : multibody docking, association/dissociation kinetics and macromolecular crowding." Thesis, University College London (University of London), 2011. http://discovery.ucl.ac.uk/1302277/.

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Protein-protein interactions are central to understanding how cells carry out their wide array of functions and metabolic procedures. Conventional studies on specific protein interactions focus either on details of one-to-one binding interfaces, or on large networks that require a priori knowledge of binding strengths. Moreover, specific protein interactions, occurring within a crowded macromolecular environment, which is precisely the case for interactions in a real cell, are often under-investigated. A macromolecular simulation package, called BioSimz, has been developed to perform Langevin
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Lu, Cheng [Verfasser], and Gerhard [Akademischer Betreuer] Stock. "Modeling protein dynamics in solution: effects of ligand binding and crowding." Freiburg : Universität, 2016. http://d-nb.info/1119452643/34.

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Cao, Yang. "Macromolecular crowding effects on the activity of the extracellular signal regulated kinase 2 /." View abstract or full-text, 2008. http://library.ust.hk/cgi/db/thesis.pl?CHEM%202008%20CAO.

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Aguilar, Ximena. "Folding and interaction studies of subunits in protein complexes." Doctoral thesis, Umeå universitet, Kemiska institutionen, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-84726.

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Proteins function as worker molecules in the cell and their natural environment is crowded. How they fold in a cell-like environment and how they recognize their interacting partners in such conditions, are questions that underlie the work of this thesis. Two distinct subjects were investigated using a combination of biochemical- and biophysical methods. First, the unfolding/dissociation of a heptameric protein (cpn10) in the presence of the crowding agent Ficoll 70. Ficoll 70 was used to mimic the crowded environment in the cell and it has been used previously to study macromolecular crowding
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Christiansen, Alexander. "Effects of Macromolecular Crowding on Protein Folding : - in-vitro equilibrium and kinetic studies on selected model systems." Doctoral thesis, Umeå universitet, Kemiska institutionen, 2013. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-82059.

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Protein folding is the process during which an extended and unstructured polypeptide converts to its compact folded structure that is most often the functional state. The process has been characterized extensively in dilute buffer in-vitro during the last decades but the actual biological place for this process is the inside of living cells. The cytoplasm of a cell is filled with a plethora of different macromolecules that together occupy up to 40% of the total volume. This large amount of macromolecules restricts the available space to each individual molecule, which has been termed macromole
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Capítulos de libros sobre el tema "Proteins crowding"

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Uversky, Vladimir N. "Conformational Behavior of Intrinsically Disordered Proteins: Effects of Strong Denaturants, Temperature, PH, Counterions, and Macromolecular Crowding." In Instrumental Analysis of Intrinsically Disordered Proteins. John Wiley & Sons, Inc., 2010. http://dx.doi.org/10.1002/9780470602614.ch19.

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Casati, Diego F. Gómez, Miguel A. Aon, and Alberto A. Iglesias. "Molecular Crowding and Cytoskeletal Proteins Affect the Allosteric Regulatory Properties of ADP Glucose Pyrophosphorylase." In Photosynthesis: Mechanisms and Effects. Springer Netherlands, 1998. http://dx.doi.org/10.1007/978-94-011-3953-3_861.

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Varela, Daniel, and José Santos. "Crowding Differential Evolution for Protein Structure Prediction." In From Bioinspired Systems and Biomedical Applications to Machine Learning. Springer International Publishing, 2019. http://dx.doi.org/10.1007/978-3-030-19651-6_19.

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Ellis, R. John. "Protein Aggregation: Opposing Effects of Chaperones and Crowding." In Folding for the Synapse. Springer US, 2010. http://dx.doi.org/10.1007/978-1-4419-7061-9_2.

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Rösgen, Jörg. "Molecular Crowding and Solvation: Direct and Indirect Impact on Protein Reactions." In Methods in Molecular Biology. Humana Press, 2008. http://dx.doi.org/10.1007/978-1-59745-367-7_9.

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Chitara, Dheeraj, and Prashant Kumar. "Insights from Molecular Dynamics Studies: The Effects of Molecular Crowding on the Human Argonaute Protein." In Proceedings of the NIELIT's International Conference on Communication, Electronics and Digital Technology. Springer Nature Singapore, 2023. http://dx.doi.org/10.1007/978-981-99-1699-3_39.

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Chou, James J. "RDC for Membrane Proteins." In Residual Dipolar Couplings. Royal Society of Chemistry, 2024. http://dx.doi.org/10.1039/bk9781839167898-00159.

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Rapid progress of lipidic cubic phase crystallography and cryo-electron microscopy in the past decade has drastically lowered the barrier of obtaining high resolution structures of membrane proteins. There are, however, areas of membrane biology that remain largely intractable to these methods. These areas include the transmembrane and juxtamembrane regions of single-pass membrane proteins, small protein domains that dynamically associate with the membrane, as well as intrinsically dynamic membrane proteins such as viroporins and membrane fusogens. For these membrane protein systems, NMR spect
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Pandey, Mukesh, Jahangir Nabi, Nahida Tabassum, Faheem Hyder Pottoo, Renuka Khatik, and Niyaz Ahmad. "Molecular Chaperones in Neurodegeneration." In Quality Control of Cellular Protein in Neurodegenerative Disorders. IGI Global, 2020. http://dx.doi.org/10.4018/978-1-7998-1317-0.ch014.

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Cellular chaperones are essential players to this protein quality control network that functions to prevent protein misfolding, refold misfolded proteins, or degrade them, thereby maintaining neuronal proteostasis. Moreover, overexpression of cellular chaperones is considered to inhibit protein aggregation and apoptosis in various experimental models of neurodegeneration. Alterations or downregulation of chaperone machinery by age-related decline, molecular crowding, or genetic mutations are regarded as key pathological hallmarks of neurodegenerative disorders like Alzheimer's disease (AD), Pa
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Ito, Yutaka, Teppei Ikeya, and Kohsuke Inomata. "In-cell Structural Biology Through the Integration of Solution NMR Spectroscopy and Computational Science." In Integrated Structural Biology. Royal Society of Chemistry, 2023. http://dx.doi.org/10.1039/bk9781837670154-00155.

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The highly crowded environment of the cytoplasmic spaces of living cells has considerable effects not only on the enzymatic and binding activities, but also on the conformation and dynamics of bio-macromolecules. In-cell NMR spectroscopy is currently the only method capable of analysing the effects of the intracellular crowding on the biophysical properties of bio-macromolecules in real time at atomic resolution. Indeed, in-cell NMR has now been applied to various intracellular events and interesting findings have been reported. Molecular dynamics simulations that consider molecular crowding a
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Musiani, F., and A. Giorgetti. "Protein Aggregation and Molecular Crowding." In International Review of Cell and Molecular Biology. Elsevier, 2017. http://dx.doi.org/10.1016/bs.ircmb.2016.08.009.

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Actas de conferencias sobre el tema "Proteins crowding"

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Truskett, Thomas M. "How Concentration and Crowding Impact Protein Stability: Insights From a Coarse-Grained Model." In ASME 2008 Summer Bioengineering Conference. American Society of Mechanical Engineers, 2008. http://dx.doi.org/10.1115/sbc2008-192239.

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Much of the current understanding of the protein folding problem derives from studies of proteins in dilute solutions. However, in many systems of scientific and engineering interest, proteins must fold in concentrated, heterogeneous environments. Cells are crowded with many molecular species, and chaperones often sequester proteins and promote rapid folding. Proteins are also present in high concentrations in the manufacture, storage, and delivery of biotherapeutics. How does crowding generally affect the stability of the native state? Are all crowding agents created equal? If not, can generi
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Bernaschi, Massimo, Mauro Bisson, Massimiliano Fatica, and Simone Melchionna. "20 petaflops simulation of proteins suspensions in crowding conditions." In SC13: International Conference for High Performance Computing, Networking, Storage and Analysis. ACM, 2013. http://dx.doi.org/10.1145/2503210.2504563.

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Dias, André, Mateus Boiani, and Rafael Parpinelli. "Aplicação de Evolução Diferencial em GPU Para o Problema de Predição de Estrutura de Proteínas com Modelo 3D AB Off-Lattice." In XXI Simpósio em Sistemas Computacionais de Alto Desempenho. Sociedade Brasileira de Computação, 2020. http://dx.doi.org/10.5753/wscad.2020.14080.

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A função que uma proteína exerce está diretamente relacionada com a sua estrutura tridimensional. Porém, para a maior parte das proteínas atualmente sequenciadas ainda não se conhece sua forma estrutural nativa. Este artigo propõe a utilização do algoritmo de Evolução Diferencial (DE) desenvolvido na plataforma NVIDIA CUDA aplicado ao modelo 3D AB Off-Lattice para Predição de Estrutura de Proteínas. Uma estratégia de nichos e crowding foi implementada no algoritmo DE combinada com técnicas de autoajuste de parâmetros, rotinas para reinicialização da população, dois níveis de otimização e busca
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Rocha, Gregório Kappaun, Fábio Lima Custódio, Helio J. C. Barbosa, and Laurent Emmanuel Dardenne. "Using Crowding-Distance in a Multiobjective Genetic Algorithm for Protein Structure Prediction." In GECCO '16: Genetic and Evolutionary Computation Conference. ACM, 2016. http://dx.doi.org/10.1145/2908961.2931717.

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Rocha, Gregorio Kappaun, Fabio Lima Custodio, Helio Jose Correa Barbosa, and Laurent Emmanuel Dardenne. "A multiobjective approach for protein structure prediction using a steady-state genetic algorithm with phenotypic crowding." In 2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB). IEEE, 2015. http://dx.doi.org/10.1109/cibcb.2015.7300284.

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Informes sobre el tema "Proteins crowding"

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Noga, Edward J., Angelo Colorni, Michael G. Levy, and Ramy Avtalion. Importance of Endobiotics in Defense against Protozoan Ectoparasites of Fish. United States Department of Agriculture, 2003. http://dx.doi.org/10.32747/2003.7586463.bard.

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Infectious disease is one of the most serious causes of economic loss in all sectors of aquaculture. There is a critical need to understand the molecular basis for protection against infectious disease so that safer, more reliable and more cost-effective strategies can be designed for their control. As part of this effort, the major goal of our BARD project was to determine the importance of endobiotics as a defense against protozoan ectoparasites in fish. Endobiotics, or antimicrobial polypeptides, are peptides and small proteins that are increasingly recognized as having a vital role in the
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Stachowiak, Jeanne C., Carl C. Hayden, Oscar Negrete, Ryan Wesley Davis, and Darryl Y. Sasaki. Towards understanding of Nipah virus attachment protein assembly and the role of protein affinity and crowding for membrane curvature events. Office of Scientific and Technical Information (OSTI), 2013. http://dx.doi.org/10.2172/1096477.

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