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22. Self-assembled nanobodies as selectively targeted, nanostructured, and multivalent materialsLaura Sánchez-García, Eric Voltà-Durán, Eloi Parladé, Elisa Mazzega, Alejandro Sánchez-Chardi, Naroa Serna, Hèctor López-Laguna, Mara Mitstorfer, Ugutz Unzueta, Esther Vázquez, Antonio Villaverde, Ario De Marco, 2021, review article Keywords: nanobodies, nanoparticles, fluorescent reagents, protein self-assembling
Published in RUNG: 30.06.2021; Views: 2021; Downloads: 0
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23. Quality control of protein reagents for the improvement of research data reproducibilityArio De Marco, Nick Berrow, Mario Lebendiker, Maria Garcia-Alai, Stefan H. Knauer, Blanca Lopez-Mendez, Andre Matagne, Annabel Parret, Kim Remans, Stephan Uebel, Bertrand Raynal, 2021, short scientific article Keywords: protein quality, protein aggregation, data reproducibility
Published in RUNG: 17.05.2021; Views: 2045; Downloads: 13
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24. Implicit water model within the Zimm-Bragg approach to analyze experimental data for heat and cold denaturation of proteinsArtem Badasyan, Sh. A. Tonoyan, Matjaž Valant, Jože Grdadolnik, 2021, original scientific article Abstract: Studies of biopolymer conformations essentially rely on theoretical models that are routinely
used to process and analyze experimental data. While modern experiments allow study of
single molecules in vivo, corresponding theories date back to the early 1950s and require an
essential update to include the recent significant progress in the description of water. The
Hamiltonian formulation of the Zimm-Bragg model we propose includes a simplified, yet
explicit model of water-polypeptide interactions that transforms into the equivalent implicit
description after performing the summation of solvent degrees of freedom in the partition
function. Here we show that our model fits very well to the circular dichroism experimental
data for both heat and cold denaturation and provides the energies of inter- and intra-
molecular H-bonds, unavailable with other processing methods. The revealed delicate
balance between these energies determines the conditions for the existence of cold dena-
turation and thus clarifies its absence in some proteins.
Keywords: protein folding, cold denaturation, water, Zimm-Bragg model
Published in RUNG: 06.05.2021; Views: 2073; Downloads: 13
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25. Community-wide experimental evaluation of the PROSS stability-design methodYoav Peleg, Renaud Vincentelli, Brett M. Collins, Kai-En Chen, Emma K. Livingstone, Saroja Weeratunga, Natalya Leneva, Qian Guo, Kim Remans, Ario De Marco, 2021, original scientific article Keywords: protein stability, recombinant production, optimization algorithm, PROSS
Published in RUNG: 23.04.2021; Views: 2192; Downloads: 0
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26. Quality control of purified proteins to improve data quality and reproducibility: results from a large-scale surveyNick Berrow, Ario De Marco, Mario Lebendiker, Maria Garcia-Alai, Stefan H. Knauer, Blanca Lopez-Mendez, Andre Matagne, Annabel Parret, Kim Remans, Stephan Uebel, Bertrand Raynal, 2021, original scientific article Keywords: protein quality, biophysical analysis, protein aggregates
Published in RUNG: 22.04.2021; Views: 2060; Downloads: 0
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27. Structural basis of human clamp sliding on DNAMatteo De March, N. Merino, S. Barrera-Vilarmau, R. Crehuet, S. Onesti, Francisco J. Blanco-Silva, A. De Biasio, 2018, complete scientific database of research data Keywords: DNA binding protein, Homo sapiens, synthetic constructs, Escherichia coli
Published in RUNG: 17.03.2021; Views: 2407; Downloads: 10
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28. Modulation of PCNA sliding surface by p15PAF suggests a suppressive mechanism for cisplatin-induced DNA lesion bypass by pol eta holoenzymeMatteo De March, S. Barrera-Vilarmau, E. Mentegari, N. Merino, E. Bressan, G. Maga, R. Crehuet, S. Onesti, Francisco J. Blanco-Silva, A. De Biasio, 2012, complete scientific database of research data Keywords: DNA binding protein, Homo sapiens, Escherichia coli
Published in RUNG: 17.03.2021; Views: 2064; Downloads: 9
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