The BioMolViz Project: Difference between revisions
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== | ==Project Overview== | ||
The BioMolViz Framework is a guide for biomolecular visualization (BMV) instruction. Designed and amended by teams of biochemistry and molecular biology instructors, the Framework divides visual literacy into 12 Overarching Themes. Each theme is subdivided into several broad learning goals, which are further partitioned into a series of specific learning objectives. The objectives describe discrete tasks for the BMV learner to accomplish. By considering the Overarching Theme, learning goals, and objectives, instructors can create BMV assessments using backward design, considering their course aims in the design process. Likewise, the BMV learner can utilize the Framework to guide their own learning by exploring the BMV topics and skills instructors consider key for development of visual literacy. | The BioMolViz Framework is a guide for biomolecular visualization (BMV) instruction. Designed and amended by teams of biochemistry and molecular biology instructors, the Framework divides visual literacy into 12 Overarching Themes. Each theme is subdivided into several broad learning goals, which are further partitioned into a series of specific learning objectives. The objectives describe discrete tasks for the BMV learner to accomplish. By considering the Overarching Theme, learning goals, and objectives, instructors can create BMV assessments using backward design, considering their course aims in the design process. Likewise, the BMV learner can utilize the Framework to guide their own learning by exploring the BMV topics and skills instructors consider key for development of visual literacy. | ||
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'''[[:Category:Topology and Connectivity|Topology and Connectivity (TC)]]''' ‐ Following the chain direction through the molecule, translating between 2D topology mapping and 3D rendering. | '''[[:Category:Topology and Connectivity|Topology and Connectivity (TC)]]''' ‐ Following the chain direction through the molecule, translating between 2D topology mapping and 3D rendering. | ||
== An Example Assessment == | == An Example Assessment == | ||
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<StructureSection load='2yvk' size='340' side='right' caption='Caption for this structure' scene=''> | <StructureSection load='2yvk' size='340' side='right' caption='Caption for this structure' scene=''> | ||
One learning goal encompassed by the'''[[:Category:Alternate Renderings|Alternate Renderings (AR)]]''' Overarching Theme is: | |||
'''AR1''': Students can create meaningful molecular images to convey features such as secondary structure, CPK coloring, active sites and molecular interactions. | |||
A learning objective encompassed by this goal is | |||
'''AR1.04:''' Students can infer information from rendering a structure in different ways. | |||
An '''assessment''' to test if this learning objective has been met would be: | |||
Given the structure of 5-methylthioribose 1-phosphate(MTRu-1-P) isomerase bound to MTRu-1-P (PDB ID: 2yvk chain A), use Jmol (or another molecular visualization tool such as Chimera or PyMOL) to identify the amino acids in the protein that interact with the ligand. | Given the structure of 5-methylthioribose 1-phosphate(MTRu-1-P) isomerase bound to MTRu-1-P (PDB ID: 2yvk chain A), use Jmol (or another molecular visualization tool such as Chimera or PyMOL) to identify the amino acids in the protein that interact with the ligand. | ||
To show mastery | To show mastery, the learner will first focus on <scene name='86/865933/Unit_a/5'>subunit A of the complex</scene>. To view the interacting residues, the learner displays nearby residues within 5Å of the active site. Displaying polar contacts to nearby residues is generally quite straightforward in most molecular visualization software programs. | ||
</StructureSection> | </StructureSection> | ||
