Long-range allosteric effects - How adenine nucleotides shape the conformational landscape of the Ski2-like RNA helicase, Brr2

Autor: K. Vester, Pohl Milón, Eva Absmeier, Karine F. Santos, Markus C. Wahl, Tahereh Ghane, Marina V. Rodnina, Dmitry Burakovskiy, Petra Imhof

Brr2 is an essential Ski2-like RNA helicase that exhibits a unique structure among the spliceosomal helicases. Brr2 harbors a catalytically active N-terminal helicase cassette and a structurally similar, but enzymatically inactive C-terminal helicase

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::8f824bba7d9e502bb7c5f6b238fdb1aa
https://doi.org/10.1101/2021.01.28.428616

Hydrogen-Bonded Network and Water Dynamics in the D-channel of Cytochrome c Oxidase

Autor: Senta Volkenandt, Petra Imhof, Ferand Dalatieh, Tahereh Ghane, Sandro Wrzalek, Rene F. Gorriz, Marco Reidelbach

Publikováno v: The Journal of Membrane Biology. 251:299-314

Proton transfer in cytochrome c oxidase (CcO) from the cellular inside to the binuclear redox centre as well as proton pumping through the membrane takes place through proton entrance via two distinct pathways, the D- and K-channel. Both channels sho

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::17402fef2bc83e360ae7068f3b41a380
https://doi.org/10.1007/s00232-018-0019-x

Retraction Notice to: Protonation State-Dependent Communication in Cytochrome c Oxidase

Autor: Petra Imhof, Mahdi Bagherpoor Helabad, Marco Reidelbach, Ernst-Walter Knapp, Anna Lena Woelke, Tahereh Ghane

Publikováno v: Biophysical journal. 113(1)

Proton transfer in cytochrome c oxidase from the cellular inside to the binuclear redox center (BNC) can occur through two distinct pathways, the D- and K-channels. For the protein to function as both redox enzyme and proton pump, proton transfer out

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::43e8aa7e6b3c6793b493543577620990
https://pubmed.ncbi.nlm.nih.gov/27508434

DNAshape: a method for the high-throughput prediction of DNA structural features on a genomic scale

Autor: Iris Dror, Remo Rohs, Tahereh Ghane, Lin Yang, Ana Carolina Dantas Machado, Rosa Di Felice, Tianyin Zhou, Yan Lu

Publikováno v: Nucleic Acids Research

We present a method and web server for predicting DNA structural features in a high-throughput (HT) manner for massive sequence data. This approach provides the framework for the integration of DNA sequence and shape analyses in genome-wide studies.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b84a3176c44ab6f31db0bc2551944a24
https://doi.org/10.1093/nar/gkt437

Optical Properties of Triplex DNA from Time-Dependent Density Functional Theory

Autor: Rosa Di Felice, Daniele Varsano, Giorgia Brancolini, Tahereh Ghane

Publikováno v: The journal of physical chemistry. B 116 (2012): 10693–10702. doi:10.1021/jp304818s
info:cnr-pdr/source/autori:Ghane, T (Ghane, Tahereh)1,2; Brancolini, G (Brancolini, Giorgia)1; Varsano, D (Varsano, Daniele)1,3; Di Felice, R (Di Felice, Rosa)/titolo:Optical Properties of Triplex DNA from Time-Dependent Density Functional Theory/doi:10.1021%2Fjp304818s/rivista:The journal of physical chemistry. B/anno:2012/pagina_da:10693/pagina_a:10702/intervallo_pagine:10693–10702/volume:116

We present a combined investigation of the dynamics and optics of triplex DNA, based on classical molecular dynamics and time-dependent density functional theory. Our approach is devised to include the effects of conformational fluctuations on the el

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::957a183b4ffc91b93defd6753bec2fd7
https://doi.org/10.1021/jp304818s