A Self-Assisting Protein Folding Model for Teaching Structural Molecular Biology

Davenport, Jodi L.; Pique, Michael E.; Getzoff, Elizabeth D.; Huntoon, Jon; Gardner, Adam; Olson, Arthur J.

doi:10.1016/j.str.2017.03.001

Cited by 20 publications

(17 citation statements)

References 16 publications

(17 reference statements)

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“…[49][50] Concrete or physical models can convey spatial relationships and mechanisms in unique ways. Work in the field of molecular cell biology shows that concrete models can activate perceptual and cognitive processes that go beyond the visual and bring a sense of reality and natural interaction into the process of exploration and understanding [27]. Fourth, as the topic was found to be difficult to relate to real life, the concrete dynamic model by which simulation takes place should also be embedded in an authentic context, see Section 2.5.…”

Section: Modelling Cellular Respirationmentioning

confidence: 99%

Understanding Cellular Respiration through Simulation Using Lego® as a Concrete Dynamic Model

et al. 2019

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Out of all the complex systems in science education curricula, cellular respiration is considered to be one of the most complex and abstract processes. Students are known to have low interest and difficulties in conceptual understanding of cellular respiration which provides a challenge for teaching and learning. In this study, we took literature about modelling and teaching and learning cellular respiration as a starting point for the design of a concrete dynamic model in which students (n = 126) use Lego® to simulate the process of cellular respiration. Students used the simulation embedded in the context of finding the efficiency of a sediment battery as a future source of green energy and we tested the effects on conceptual learning and situational interest in an experimental study. Results on conceptual learning show that both experimental and control groups had comparable results in the test. The questions that students in the experimental group asked during enactment, however, gave notice of a focus on both isolated component parts as well as modes of organization at higher organizational levels which is linked to how biologists mechanistically understand complex systems. Both groups report a similar high measure to which the topic is meaningful in real life (situational interest value), whereas the enjoyment (situational interest feeling) was significantly increased in the experimental group. Furthermore, students report specific advantages (e.g., I now understand that one acid chemically changes into another and they do not just transfer atoms) and disadvantages (e.g., time issues).

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Section: Modelling Cellular Respirationmentioning

confidence: 99%

Understanding Cellular Respiration through Simulation Using Lego® as a Concrete Dynamic Model

et al. 2019

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“…A base EBSCO não retornou resultados. Dos estudos selecionados, foi visto que grande parte dos modelos criados tinham o intuito de ensinar morfologia aos estudantes (AUGUSTO et al, 2016;BACKHOUSE;TAYLOR;ARMITAGE, 2018;BAGLEY;GALPIN, 2015;BANNON et al, 2018;CANTÍN;MUÑOZ;OLATE, 2015;CHEN et al, 2017;DAVENPORT et al, 2017;GARAS et al, 2018;KONG et al, 2016;LI et al, 2018;LIM et al, 2016;MCMENAMIN et al, 2014;SMITH et al, 2018;) e apenas um dos estudos tinha como objetivo ensinar morfo-funcionalidade (SMITH; JONES, 2018).…”

Section: Impressão 3d No Ensino De Ciências Básicas Da Saúde E Suas Lunclassified

“…Basicamente, os estudos se propõem a validar as estruturas de duas formas distintas: (1) Validação a partir da comparação dos modelos 3D com a estrutura real a qual ele deriva, (2) Validação dos modelos 3D em sala de aula, verificando a opinião e/ou o desempenho dos alunos após seu uso. Do total de 14 estudos selecionados, seis foram validados da primeira forma (AUGUSTO et al, 2016;BANNON et al, 2018;CANTÍN;MUÑOZ;OLATE, 2015;LI et al, 2018;MCMENAMIN et al, 2014;JONES, 2018) e 8 da segunda (BACKHOUSE; TAYLOR; ARMITAGE, 2018; BAGLEY; GALPIN, 2015;CHEN et al, 2017;DAVENPORT et al, 2017;GARAS et al, 2018;KONG et al, 2016;LIM et al, 2016;SMITH et al, 2018;STREICHER;KINI;STOFF, 2016).…”

Section: Impressão 3d No Ensino De Ciências Básicas Da Saúde E Suas Lunclassified

“…Dos oito estudos que testaram os modelos 3D em ambiente acadêmico, três relatam aumento do interesse em aprender (BAGLEY; GALPIN, 2015;DAVENPORT et al, 2017;SMITH et al, 2018). Além disso, Lim et al (2016) verificaram que o uso de modelos 3D avaliados isoladamente conferiu benefícios ao aprendizado anatômico em relação ao uso de materiais cadavéricos ou em combinação com eles.…”

Section: Impressão 3d No Ensino De Ciências Básicas Da Saúde E Suas Lunclassified

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Impressão 3D aplicada ao ensino de ciências básicas da saúde: onde estamos e onde queremos chegar

Chaves¹,

Dutra²,

Rocha³

2018

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As ciências básicas da saúde (CBS) consistem na base da formação do profissional de saúde. A sua compreensão exige abstração e capacidade imaginativa, uma vez que lida com processos subcelulares de difícil visualização. Nesse contexto, novas tecnologias como recursos educacionais impressos em 3D (REs 3D) podem auxiliar na sua compreensão. O presente trabalho visa apresentar o atual uso de REs 3D no ensino de CBS e propor atualizações para sua aplicação no ensino de função. O estudo consiste em uma revisão de literatura seguida de opinião com relato de experiência. O uso de REs 3D no ensino de CBS é voltado quase que exclusivamente para morfologia. A adição de tecnologias como microcontroladores e realidade aumentada pode levar os REs 3d ao próximo nível, tornando-os adequados ao ensino de função.

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“…7 Organic chemistry and structural biology, which are inherently 3D sciences, are ideally positioned to benefit from physical models. [8][9][10] For example, Meyer reported on laboratory curriculum to create an entire 3D-printed leucine zipper domain, starting from simplified Protein Data Bank (PDB) files, and the molecular graphics system, PyMOL. 10 Others have been able to reach a higher level of molecular detail by representing some of the key atomic interactions.…”

Section: Introductionmentioning

confidence: 99%

Skeletides: A Modular, Simplified Physical Model of Protein Secondary Structure

Asachi

Nguyen

Dang

et al. 2020

3D Printing and Additive Manufacturing

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Three-dimensional (3D) models are essential for visualization and conceptual understanding of complex architectures such as protein structure. Although there is a plethora of software platforms that allow digital depictions of protein structure at an atomic level in silico, physical models are needed to convey an intuitive understanding of biomolecular architecture. However, it is a challenge to represent all the relevant features of proteins in a single physical model due to their sheer structural complexity. Here, we describe a modular protein model that focuses only on representation of the secondary structure-the underlying structural skeleton. The simplified model consists of amino acid units, which can be linked together to reproduce the two most fundamental structural features of protein secondary structure: the relative positions of the amino acid alpha carbon atoms, and the intramain chain hydrogen bonding pattern. We use 3D printing and magnets to create a set of three modular amino acid building blocks, which when linked together into a chain, can faithfully represent alpha helices, beta sheets, and turns. These simple to make models can be used to quickly assemble the alpha carbon trace of an entire protein domain, which conveys a tactile experience of the complexity of protein skeletal architecture. These models highlight the modularity of protein structure: where a single structural unit, the amino acid, can be linked together to form a larger, regular secondary structure. These models also have a propensity to spontaneously organize into alpha helices and beta sheets, as demonstrated by their ability to autonomously assemble when placed in a circulating water tank. These models provide a missing educational tool to expand knowledge of protein structure, foster deeper insight into protein folding, and inspire greater interest in biomacromolecular architecture.

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A Self-Assisting Protein Folding Model for Teaching Structural Molecular Biology

Cited by 20 publications

References 16 publications

Understanding Cellular Respiration through Simulation Using Lego® as a Concrete Dynamic Model

Understanding Cellular Respiration through Simulation Using Lego® as a Concrete Dynamic Model

Impressão 3D aplicada ao ensino de ciências básicas da saúde: onde estamos e onde queremos chegar

Skeletides: A Modular, Simplified Physical Model of Protein Secondary Structure

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