Student Projects for UMass Chemistry 423 Spring 2012: Difference between revisions

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'''1. Topics and 1 green scene: Sandbox pages displaying initial structure and one green scene due by end of class workshop 2/27/12'''
'''1. Topics and 1 green scene: Sandbox pages displaying initial structure and one green scene due by end of class workshop 2/??/12'''
:'''Teams''' of 4 people will be assigned, to include both chemistry and chemical engineering majors on most teams. You may request one teammate by emailing the TA by Feb 17.  
:'''Teams''' of 4 people will be assigned, to include both chemistry and chemical engineering majors on most teams. You may request one teammate by emailing the TA by noon Feb 16.  
:Select an available '''topic''' (not already chosen by another team) from the [[#Topic List|Topic List]] or find a simple protein-ligand complex (eg protein-drug, nucleic acid-drug, or protein-DNA) with a known structure in the pdb that interests your team.  For any topic not on the list, email Prof Thompson to get approval: send the pdb code for the complex and briefly explain the disease connection or why it is interesting. Add your topic to the team list at [[Sandbox423]].
:Once you know your team assignment, select an available '''topic''' (not already chosen by another team) from the [[#Topic List|Topic List]] or find a simple protein-ligand complex (eg protein-drug, nucleic acid-drug, or protein-DNA) with a known structure in the pdb that interests your team.  For any topic not on the list, be sure that it does not already have a detailed Proteopedia page and email Prof Thompson to get approval: send the pdb code for the complex and briefly explain the disease connection or why it is interesting. Add your topic to the team list at [[Sandbox423]].


:'''Start your assigned sandbox page''': Find the pdb id for your protein-ligand complex in the Protein Data Bank. In your assigned sandbox page click"edit this page" (top) and follow the directions to insert your rotating structure on your page. Describe and illustrate with a green scene the secondary structure of your protein.
:'''Start your assigned sandbox page''': Find the pdb id for your protein-ligand complex in the Protein Data Bank. In your assigned sandbox page click"edit this page" (top) and follow the directions to insert your rotating structure on your page. Describe and illustrate with a green scene the secondary structure of your protein.
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''Your proteopedia page should be organized into the following 4 required sections, with each team member responsible for one of sections a-d of the team project.''
''Your proteopedia page should be organized into the following 4 required sections, with each team member responsible for one of sections a-d of the team project.''
Each section should have its own jmol window. Provide interesting and nontechnical descriptions in words, and illustrate your points about the complex with multiple green scenes. Be concise: the written description should not extend beyond the jmol window. Do not include any copyrighted figures. All sections must be written in your own words with citations to your sources, following the reference format in the example below. Make it interesting and accessible to a non-scientist!
Each section should have its own JMol window. Provide an interesting description (suitable for non-experts), and illustrate your points about the complex with multiple green scenes. Be concise: the written description should not extend beyond the jmol window. Do not include any copyrighted figures. All sections must be written in your own words with citations to your sources, following the reference format in the example below. You may include links to other interesting information or scenes but you must create your own scenes for display on your page.
 
Make it* interesting and accessible to a non-scientist! Show clearly some chemical details to illustrate the chemistry of life processes!
 
*particularly the the introductory sections


a. Introduction
a. Introduction
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