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Literature DB >> 29190271

MDsrv: viewing and sharing molecular dynamics simulations on the web.

Johanna K S Tiemann^1,2, Ramon Guixà-González¹, Peter W Hildebrand^1,2, Alexander S Rose^1,3.

Abstract

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Year: 2017 PMID： 29190271 DOI： 10.1038/nmeth.4497

Source DB: PubMed Journal: Nat Methods ISSN： 1548-7091 Impact factor: 28.547

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5 in total

1. A database of dynamics.

Authors: Allison Doerr
Journal: Nat Methods Date: 2010-06 Impact factor: 28.547

Review 2. Biomolecular simulation: a computational microscope for molecular biology.

Authors: Ron O Dror; Robert M Dirks; J P Grossman; Huafeng Xu; David E Shaw
Journal: Annu Rev Biophys Date: 2012 Impact factor: 12.981

3. Birth and future of multiscale modeling for macromolecular systems (Nobel Lecture).

Authors: Michael Levitt
Journal: Angew Chem Int Ed Engl Date: 2014-08-05 Impact factor: 15.336

4. NGL Viewer: a web application for molecular visualization.

Authors: Alexander S Rose; Peter W Hildebrand
Journal: Nucleic Acids Res Date: 2015-04-29 Impact factor: 16.971

5. Membrane cholesterol access into a G-protein-coupled receptor.

Authors: Ramon Guixà-González; José L Albasanz; Ismael Rodriguez-Espigares; Manuel Pastor; Ferran Sanz; Maria Martí-Solano; Moutusi Manna; Hector Martinez-Seara; Peter W Hildebrand; Mairena Martín; Jana Selent
Journal: Nat Commun Date: 2017-02-21 Impact factor: 14.919

5 in total

14 in total

1. HTMoL: full-stack solution for remote access, visualization, and analysis of molecular dynamics trajectory data.

Authors: Mauricio Carrillo-Tripp; Leonardo Alvarez-Rivera; Omar Israel Lara-Ramírez; Francisco Javier Becerra-Toledo; Adan Vega-Ramírez; Emmanuel Quijas-Valades; Eduardo González-Zavala; Julio Cesar González-Vázquez; Javier García-Vieyra; Nelly Beatriz Santoyo-Rivera; Sergio Victor Chapa-Vergara; Amilcar Meneses-Viveros
Journal: J Comput Aided Mol Des Date: 2018-08-06 Impact factor: 3.686

2. Structural Insights into the Process of GPCR-G Protein Complex Formation.

Authors: Xiangyu Liu; Xinyu Xu; Daniel Hilger; Philipp Aschauer; Johanna K S Tiemann; Yang Du; Hongtao Liu; Kunio Hirata; Xiaoou Sun; Ramon Guixà-González; Jesper M Mathiesen; Peter W Hildebrand; Brian K Kobilka
Journal: Cell Date: 2019-05-09 Impact factor: 41.582

MDsrv: viewing and sharing molecular dynamics simulations on the web.

1. A database of dynamics.

Review 2. Biomolecular simulation: a computational microscope for molecular biology.

3. Birth and future of multiscale modeling for macromolecular systems (Nobel Lecture).

4. NGL Viewer: a web application for molecular visualization.

5. Membrane cholesterol access into a G-protein-coupled receptor.

1. HTMoL: full-stack solution for remote access, visualization, and analysis of molecular dynamics trajectory data.

2. Structural Insights into the Process of GPCR-G Protein Complex Formation.

3. Voronoia 4-ever.

4. BioExcel Building Blocks Workflows (BioBB-Wfs), an integrated web-based platform for biomolecular simulations.

5. MDsrv: visual sharing and analysis of molecular dynamics simulations.

6. SCoV2-MD: a database for the dynamics of the SARS-CoV-2 proteome and variant impact predictions.

Review 7. How Do Molecular Dynamics Data Complement Static Structural Data of GPCRs.

8. A reporter system for enriching CRISPR/Cas9 knockout cells in technically challenging settings like patient models.

9. PCAViz: An Open-Source Python/JavaScript Toolkit for Visualizing Molecular Dynamics Simulations in the Web Browser.

10. RNA CoSSMos 2.0: an improved searchable database of secondary structure motifs in RNA three-dimensional structures.