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BioAFMviewer software for simulation atomic force microscopy of molecular structures and conformational dynamics.
J Struct Biol X. 2023 Feb 13;7:100086. doi: 10.1016/j.yjsbx.2023.100086. eCollection 2023.
J Struct Biol X. 2023.
PMID: 36865763
Free PMC article.
Review.
Simulation atomic force microscopy for atomic reconstruction of biomolecular structures from resolution-limited experimental images.
Amyot R, Marchesi A, Franz CM, Casuso I, Flechsig H.
Amyot R, et al.
PLoS Comput Biol. 2022 Mar 16;18(3):e1009970. doi: 10.1371/journal.pcbi.1009970. eCollection 2022 Mar.
PLoS Comput Biol. 2022.
PMID: 35294442
Free PMC article.
Item in Clipboard
Predicting the placement of biomolecular structures on AFM substrates based on electrostatic interactions.
Amyot R, Nakamoto K, Kodera N, Flechsig H.
Amyot R, et al.
Front Mol Biosci. 2023 Nov 28;10:1264161. doi: 10.3389/fmolb.2023.1264161. eCollection 2023.
Front Mol Biosci. 2023.
PMID: 38094082
Free PMC article.
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BioAFMviewer: An interactive interface for simulated AFM scanning of biomolecular structures and dynamics.
Amyot R, Flechsig H.
Amyot R, et al.
PLoS Comput Biol. 2020 Nov 18;16(11):e1008444. doi: 10.1371/journal.pcbi.1008444. eCollection 2020 Nov.
PLoS Comput Biol. 2020.
PMID: 33206646
Free PMC article.
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Structural Dynamics of E6AP E3 Ligase HECT Domain and Involvement of a Flexible Hinge Loop in the Ubiquitin Chain Synthesis Mechanism.
Takeda K, Flechsig H, Muro I, Amyot R, Kobayashi F, Kodera N, Ando T, Konno H.
Takeda K, et al. Among authors: amyot r.
Nano Lett. 2023 Dec 27;23(24):11940-11948. doi: 10.1021/acs.nanolett.3c04150. Epub 2023 Dec 6.
Nano Lett. 2023.
PMID: 38055898
Free PMC article.
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Dynamic Solution Structures of Whole Human NAP1 Dimer Bound to One and Two Histone H2A-H2B Heterodimers Obtained by Integrative Methods.
Ohtomo H, Yamane T, Oda T, Kodera N, Kurita JI, Tsunaka Y, Amyot R, Ikeguchi M, Nishimura Y.
Ohtomo H, et al. Among authors: amyot r.
J Mol Biol. 2023 Aug 1;435(15):168189. doi: 10.1016/j.jmb.2023.168189. Epub 2023 Jun 26.
J Mol Biol. 2023.
PMID: 37380014
Free article.
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Analyzing Fluctuation Properties in Protein Elastic Networks with Sequence-Specific and Distance-Dependent Interactions.
Amyot R, Togashi Y, Flechsig H.
Amyot R, et al.
Biomolecules. 2019 Sep 30;9(10):549. doi: 10.3390/biom9100549.
Biomolecules. 2019.
PMID: 31575003
Free PMC article.
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