The BioMolViz Project: Difference between revisions

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Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Kristen Procko, Josh Beckham, Jaime Prilusky, Karsten Theis

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 <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:
+One learning goal within 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.
+:'''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:
+:'''AR1.04:''' Students can infer information from rendering a structure in different ways.
-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.
+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.
 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.