Peppy: A Virtual Reality Environment for Exploring the Principles of Polypeptide Structure
Peppy: A Virtual Reality Environment for Exploring the Principles of Polypeptide Structure
复制标题
Peppy：探索多肽结构原理的虚拟现实环境
DOI：
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发表时间：
2019
期刊：
影响因子：
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通讯作者：
Jane R. Allison
中科院分区：
文献类型：
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作者：
D. Doak;G. Denyer;J. Gerrard;J. Mackay;Jane R. Allison
本科生生物化学课程的一个关键学习成果是彻底理解蛋白质结构的原理。传统的教学方法，包括在纸上的二维(2D)图像，物理分子建模工具包，以及3D结构到2D的投影，无法完全捕捉蛋白质的动态3D性质。我们已经建立了一个虚拟现实应用程序PepPy，旨在促进蛋白质二级结构原理的教学。我们没有尝试像现有的、面向研究的分子建模方法那样，以相同的保真度来对分子进行建模，而是采用了更直接的方法，即利用Unity视频游戏物理引擎。事实上，我们的模型的简单性和局限性是教学环境中的优势，引发了问题，从而加深了理解。PEPY允许探索氢键(以及更广泛的静电相互作用)、主链ϕ/ψ角、基本化学结构和空间位阻对多肽结构的相对影响，以一种新颖、动态和有趣的易用形式进行。除了描述PepPy的实施和使用，我们还讨论了在本科生物化学课程中使用PepPy的结果。陈述蛋白质结构本质上是动态的和三维的，但传统的教学工具是静态的和/或二维的。我们开发了一个虚拟现实教学工具PepPy，它有助于本科生教授蛋白质结构原理。我们概述了Peppy是如何工作的，它是如何被使用的，以及在引擎盖下发生了什么。然后，我们说明了它在本科教学中的应用，在那里，它的游戏性激发了探索，从而加深了理解。
A key learning outcome for undergraduate biochemistry classes is a thorough understanding of the principles of protein structure. Traditional approaches to teaching this material, which include two-dimensional (2D) images on paper, physical molecular modelling kits, and projections of 3D structures into 2D, are unable to fully capture the dynamic, 3D nature of proteins. We have built a virtual reality application, Peppy, aimed at facilitating teaching of the principles of protein secondary structure. Rather than attempt to model molecules with the same fidelity to the underlying physical chemistry as existing, research-oriented molecular modelling approaches, we took the more straightforward approach of harnessing the Unity video game physics engine. Indeed, the simplicity and limitations of our model are a strength in a teaching context, provoking questions and thus deeper understanding. Peppy allows exploration of the relative effects of hydrogen bonding (and electrostatic interactions more generally), backbone ϕ/ψ angles, basic chemical structure and steric effects on polypeptide structure in an accessible format that is novel, dynamic and fun to use. As well as describing the implementation and use of Peppy, we discuss the outcomes of deploying Peppy in undergraduate biochemistry courses. STATEMENT Protein structure is inherently dynamic and three-dimensional, but traditional teaching tools are static and/or two-dimensional. We have developed a virtual reality teaching tool, Peppy, that facilitates undergraduate teaching of the principles of protein structure. We outline how Peppy works in terms of how it is used and what goes on ‘under the hood’. We then illustrate its use in undergraduate teaching, where its playful nature stimulated exploration and, thus, deeper understanding.
影响因子：
5.6
作者：
Goddard TD;Brilliant AA;Skillman TL;Vergenz S;Tyrwhitt-Drake J;Meng EC;Ferrin TE
通讯作者：
Ferrin TE
影响因子：
5.6
作者：
Stefani C;Lacy-Hulbert A;Skillman T
通讯作者：
Skillman T