Influence of point mutations on PR65 conformational adaptability: Insights from molecular simulations and nanoaperture optical tweezers.

Autor: Banerjee A; Laufer Center for Physical and Quantitative Biology, Stony Brook University, Stony Brook, NY 11794, USA., Mathew S; Department of Electrical and Computer Engineering, University of Victoria, Victoria V8P 5C2, Canada., Naqvi MM; Department of Pharmacology, University of Cambridge, Tennis Court Road, Cambridge CB2 1PD, UK., Yilmaz SZ; Department of Mechanical Engineering, Istanbul Technical University, 34437 Istanbul, Turkey., Zacharopoulou M; Department of Pharmacology, University of Cambridge, Tennis Court Road, Cambridge CB2 1PD, UK., Doruker P; Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, PA 15213, USA., Kumita JR; Department of Pharmacology, University of Cambridge, Tennis Court Road, Cambridge CB2 1PD, UK., Yang SH; Department of Electrical Engineering, National Tsing Hua University, Hsinchu 30013, Taiwan., Gur M; Department of Mechanical Engineering, Istanbul Technical University, 34437 Istanbul, Turkey.; Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, PA 15213, USA., Itzhaki LS; Department of Pharmacology, University of Cambridge, Tennis Court Road, Cambridge CB2 1PD, UK., Gordon R; Department of Electrical and Computer Engineering, University of Victoria, Victoria V8P 5C2, Canada., Bahar I; Laufer Center for Physical and Quantitative Biology, Stony Brook University, Stony Brook, NY 11794, USA.; Department of Biochemistry and Cell Biology, School of Medicine, Stony Brook University, Stony Brook, NY 11794, USA.

Publikováno v: Science advances [Sci Adv] 2024 May 31; Vol. 10 (22), pp. eadn2208. Date of Electronic Publication: 2024 May 31.

SARS-CoV-2 Delta Variant Decreases Nanobody Binding and ACE2 Blocking Effectivity.

Autor: Golcuk M; Department of Mechanical Engineering, Istanbul Technical University (ITU), 34437 Istanbul, Turkey., Hacisuleyman A; Institute of Bioengineering, Swiss Federal Institute of Technology (EPFL), 1015 Lausanne, Switzerland., Yilmaz SZ; Department of Mechanical Engineering, Istanbul Technical University (ITU), 34437 Istanbul, Turkey., Taka E; Department of Mechanical Engineering, Istanbul Technical University (ITU), 34437 Istanbul, Turkey., Yildiz A; Physics Department, University of California, Berkeley, California 94720, United States.; Department of Molecular and Cellular Biology, University of California, Berkeley, California 94720, United States., Gur M; Department of Mechanical Engineering, Istanbul Technical University (ITU), 34437 Istanbul, Turkey.

Publikováno v: Journal of chemical information and modeling [J Chem Inf Model] 2022 May 23; Vol. 62 (10), pp. 2490-2498. Date of Electronic Publication: 2022 May 09.

Conformational transition of SARS-CoV-2 spike glycoprotein between its closed and open states.

Autor: Gur M; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey., Taka E; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey., Yilmaz SZ; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey., Kilinc C; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey., Aktas U; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey., Golcuk M; Department of Mechanical Engineering, Faculty of Mechanical Engineering, Istanbul Technical University (ITU), Istanbul, Turkey.

Publikováno v: The Journal of chemical physics [J Chem Phys] 2020 Aug 21; Vol. 153 (7), pp. 075101.