Projects funded by the NCN

Information on the principal investigator and host institution

Information of the project and the call

Keywords

Equipment

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The effect of crowded environment on the catalytic activity and dynamics of viral proteases

2016/23/B/NZ1/03198

Keywords:

enzymatic reactions viral proteases macromolecular crowders cellular environment isothermal titration calorimetry fluorescence spectroscopy molecular dynamics simulations

Descriptors:

  • NZ1_2: Biochemistry
  • NZ1_3: Biophysics
  • NZ2_8: Computational biology

Panel:

NZ1 - Molecular biology, structural biology, biotechnology: molecular biology, structural biology, biotechnology

Host institution :

Uniwersytet Warszawski, Centrum Nowych Technologii Uniwersytetu Warszawskiego

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

prof. Joanna Trylska 

Number of co-investigators in the project: 4

Call: OPUS 12 - announced on 2016-09-15

Amount awarded: 938 733 PLN

Project start date (Y-m-d): 2017-08-04

Project end date (Y-m-d): 2021-07-03

Project duration:: 47 months (the same as in the proposal)

Project status: Project settled

Project description

Download the project description in a pdf file

Note - project descriptions were prepared by the authors of the applications themselves and placed in the system in an unchanged form.

Equipment purchased [PL]

  1. Homogenizator laboratoryjny (3 000 PLN)
  2. Miniwirówka (615 PLN)
  3. Miniwytrząsarka (1 845 PLN)
  4. Oprogramowanie specjalistyczne (GraphPad Prism) (3 500 PLN)
  5. komputer przenośny (laptop).
  6. Zestaw komputer z monitorem i podstawowym oprogramowaniem (2 szt.) (8 000 PLN)
  7. komputer plus monitor plus licencja.
  8. transiluminator UV (5 707 PLN)
  9. Sonifikator (31 000 PLN)

Information in the final report

  • Publication in academic press/journals (10)
  • Book publications / chapters in book publications (1)
  1. Antibacterial Peptide Nucleic Acids—Facts and Perspectives
    Authors:
    Monika Wojciechowska, Marcin Równicki, Adam Mieczkowski, Joanna Miszkiewicz, Joanna Trylska
    Academic press:
    Molecules (rok: 2020, tom: 25(3), strony: 559), Wydawca: MDPI
    Status:
    Published
    DOI:
    10.3390/molecules25030559 - link to the publication
  2. Enzyme kinetics in crowded solutions from isothermal titration calorimetry
    Authors:
    Ksenia Maximova, Jakub Wojtczak, Joanna Trylska
    Academic press:
    Analytical Biochemistry (rok: 2019, tom: 567, strony: 96-105), Wydawca: Elsevier Inc.
    Status:
    Published
    DOI:
    10.1016/j.ab.2018.11.006 - link to the publication
  3. Modeling Crowded Environment in Molecular Simulations
    Authors:
    Natalia Ostrowska, Michael Feig, Joanna Trylska
    Academic press:
    Frontiers in Molecular Biosciences (rok: 2019, tom: 6, strony: 86), Wydawca: Frontiers
    Status:
    Published
    DOI:
    10.3389/fmolb.2019.00086 - link to the publication
  4. Conformational Changes of Anoplin, W-MreB1–9, and (KFF)3K Peptides near the Membranes
    Authors:
    Monika Wojciechowska, Joanna Miszkiewicz, Joanna Trylska
    Academic press:
    Int. J. Mol. Sci. (rok: 2020, tom: 21, strony: 9672), Wydawca: MDPI
    Status:
    Published
    DOI:
    10.3390/ijms21249672 - link to the publication
  5. Peptidomimetic inhibitors targeting the membrane-binding site of the T neutrophil proteinase 3
    Authors:
    Ksenia Maximova, Nathalie Reuter, Joanna Trylska
    Academic press:
    Biochimica et Biophysica Acta - Biomembranes (rok: 2019, tom: 1861, strony: 1502-1509), Wydawca: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.bbamem.2019.06.009 - link to the publication
  6. Targeting type II toxin-antitoxin systems as antibacterial strategies
    Authors:
    Marcin Równicki, Robert Lasek, Joanna Trylska, Dariusz Bartosik
    Academic press:
    Toxins (rok: 2020, tom: 12, strony: 568), Wydawca: MDPI
    Status:
    Published
    DOI:
    10.3390/toxins12090568 - link to the publication
  7. Crowded environment affects the activity and inhibition of the NS3/4A protease
    Authors:
    Agnieszka Popielec, Natalia Ostrowska, Monika Wojciechowska, Michael Feig, Joanna Trylska
    Academic press:
    Biochimie (rok: 2020, tom: 176, strony: 169-180), Wydawca: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.biochi.2020.07.009 - link to the publication
  8. Crowding affects structural dynamics and contributes to membrane association of the NS3/4A complex
    Authors:
    Natalia Ostrowska, Michael Feig, Joanna Trylska
    Academic press:
    Biophysical Journal (rok: 2021, tom: 120, strony: 45312), Wydawca: Cell Press
    Status:
    Published
    DOI:
    10.1016/j.bpj.2021.07.008 - link to the publication
  9. Enzymatic activity of human immunodeficiency virus type 1 protease in crowded solutions
    Authors:
    Ksenia Maximova, Jakub Wojtczak, Joanna Trylska
    Academic press:
    European Biophysics Journal (rok: 2019, tom: 48, strony: 685-689), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1007/s00249-019-01392-1 - link to the publication
  10. Thermodynamics of the pseudo-knot in helix 18 of 16S ribosomal RNA
    Authors:
    Monika Wojciechowska, Marta Dudek, Joanna Trylska
    Academic press:
    Biopolymers (rok: 2018, tom: 109, strony: e23116), Wydawca: Wiley Periodicals Inc.
    Status:
    Published
    DOI:
    10.1002/bip.23116 - link to the publication
  1. Modeling Nucleic Acids at the Residue–Level Resolution
    Authors:
    Filip Leonarski, Joanna Trylska
    Book:
    Computational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes (rok: 2019, tom: 8, strony: 117-161), Wydawca: Springer
    Status:
    Published

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