Teaching Scenes, Tutorials, and Educators' Pages: Difference between revisions
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*[[Introduction to Protein Structure]]--a basic introduction to protein structure and includes questions and measurements for students to consider. | *[[Introduction to Protein Structure]]--a basic introduction to protein structure and includes questions and measurements for students to consider. | ||
*Ramachandran plots: [[User:Karl_Oberholser/Ramachandran_Plots]]; now unprotected at [[Ramachandran_Plots]] (Messiah College, Grantham PA US.) | |||
*[[Structural templates]] -- an introductory tutorial on protein structures | |||
===Molecules=== | |||
*[[Avian Influenza Neuraminidase, Tamiflu and Relenza]] | *[[Avian Influenza Neuraminidase, Tamiflu and Relenza]] | ||
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*Nucleosomes: [[User:Eric Martz/Nucleosomes]]: Slides of nucleosome structure designed for, and used in, the majors' biochemistry class (Biochm 524). The same slides were copied into the non-protected page [[Nucleosomes]], where they are freely editable (and the color scheme was improved). (University of Massachusetts, Amherst MA US) | *Nucleosomes: [[User:Eric Martz/Nucleosomes]]: Slides of nucleosome structure designed for, and used in, the majors' biochemistry class (Biochm 524). The same slides were copied into the non-protected page [[Nucleosomes]], where they are freely editable (and the color scheme was improved). (University of Massachusetts, Amherst MA US) | ||
* | *[[Serine Proteases]] A Tutorial of Chymotrypsin, Trypsin and Elastase by [[User:Amy Kerzmann]] | ||
*[[ | *[[Drug Metabolism by CYP450 Enzymes]] A tutorial on the medicinal chemistry of drug metabolism for pharmacy students | ||
*[[User: | *Glutamine synthetase: [[User:Tom Gluick/glutamine synthetase]] (University of Maryland, Baltimore County). Includes instructions for using Jmol commands in the Jmol console for advanced scene authoring. | ||
* | *G protein, ras oncogene: [[James_D_Watson/Proteins_Intro]]. (European Bioinformatics Institute.) | ||
===Syllabi=== | |||
You are free to copy and adapt syllabi in Proteopedia. See ''Terms of Service'' and licenses linked at the bottom of this page. | |||
* | *Protein Structure for Biosci 203, emphasizing secondary structure and an active site: [[User:J. Shaun Lott/BIOSCI 203]]. (Univ. Auckland, NZ.) | ||
*[[ | *[[User:Wayne Decatur/Chem791A Work Session|Introduction to Proteopedia and Authoring Pages]] for a work session for Chemistry 791 - Biomolecular Structure (University of Massachusetts at Amherst) so they could do their end-of-the-semester presentations on the protein of their choice using Proteopedia. | ||
* | *[[User:Wayne Decatur/Biochem642 Molecular Visualization Sessions|Introduction to Molecular Visualization and Proteopedia Workshop]] for two two-hour sessions for Biochemistry 642 Advanced Molecular Biology at the University of Massachusetts, Amherst MA US. Students were assigned problem sets that required authoring accompanying scenes in sandbox pages. November, 2009. | ||
==Molecule of the Month (MotM) Series== | ==Molecule of the Month (MotM) Series== | ||
Revision as of 17:15, 29 January 2019
All pages in Proteopedia are educational, but some have been designed by teachers (instructors, professors, educators) specifically as slides for projection to illustrate lectures, or as tutorials for classroom use. Below is a list of such pages. Note that pages by students are listed separately at Student Projects.
Pages created within a User: domain are protected from edits by others, but their contents may be 'freely copied and adapted into other pages in Proteopedia.
Pages by Educators
Concepts
- Introduction to Protein Structure--a basic introduction to protein structure and includes questions and measurements for students to consider.
- Ramachandran plots: User:Karl_Oberholser/Ramachandran_Plots; now unprotected at Ramachandran_Plots (Messiah College, Grantham PA US.)
- Structural templates -- an introductory tutorial on protein structures
Molecules
- Lac repressor: Introduction, structure, morph of the conversion from non-specific to specific DNA binding, and questions to challenge your understanding.
- Nucleosomes: User:Eric Martz/Nucleosomes: Slides of nucleosome structure designed for, and used in, the majors' biochemistry class (Biochm 524). The same slides were copied into the non-protected page Nucleosomes, where they are freely editable (and the color scheme was improved). (University of Massachusetts, Amherst MA US)
- Serine Proteases A Tutorial of Chymotrypsin, Trypsin and Elastase by User:Amy Kerzmann
- Drug Metabolism by CYP450 Enzymes A tutorial on the medicinal chemistry of drug metabolism for pharmacy students
- Glutamine synthetase: User:Tom Gluick/glutamine synthetase (University of Maryland, Baltimore County). Includes instructions for using Jmol commands in the Jmol console for advanced scene authoring.
- G protein, ras oncogene: James_D_Watson/Proteins_Intro. (European Bioinformatics Institute.)
Syllabi
You are free to copy and adapt syllabi in Proteopedia. See Terms of Service and licenses linked at the bottom of this page.
- Protein Structure for Biosci 203, emphasizing secondary structure and an active site: User:J. Shaun Lott/BIOSCI 203. (Univ. Auckland, NZ.)
- Introduction to Proteopedia and Authoring Pages for a work session for Chemistry 791 - Biomolecular Structure (University of Massachusetts at Amherst) so they could do their end-of-the-semester presentations on the protein of their choice using Proteopedia.
- Introduction to Molecular Visualization and Proteopedia Workshop for two two-hour sessions for Biochemistry 642 Advanced Molecular Biology at the University of Massachusetts, Amherst MA US. Students were assigned problem sets that required authoring accompanying scenes in sandbox pages. November, 2009.
Molecule of the Month (MotM) Series
The Molecule of the Month series of tutorials by David Goodsell offers a wealth of molecular structure information, beautifully explained and illustrated, for student and educators. Beginning with the August, 2008 molecule, Goodsell has begun writing Proteopedia pages to complement his articles. For a complete list of Proteopedia pages in this Category see RCSB PDB Molecule of the Month.
| Date | MotM Article | Proteopedia Page |
| June 2009 | Vaults | 2zuo,2zv4,2zv5,3dkt,2qw7,3bn4 |
| May 2009 | Influenza Neuraminidase | 1nn2,3b7e,2hu4,1nca,2bat,3cl0 |
| April 2009 | Oct and Sox Transcription Factors | 1gt0,1nkp,2ebt,1o4x |
| March 2009 | Hydrogenase | 2frv,1feh,3dag,3f47,1e08,1hfe |
| February 2009 | Hydrogenase | 1e08 |
| January 2009 | Tobacco Mosaic Virus | 2tmv |
| October 2008 | Poly(A) Polymerase | 2q66 |
| September 2008 | Ribonuclease A | 1rta |
| August 2008 | Selenocysteine Synthase | SelB |
See Also
- Molecule of the Month
- Student Projects
- Adoptions in University Classes
- Teaching Strategies Using Proteopedia
- High school teachers' resources
- Proteopedia:Primer, a guide for teachers making a page in Proteopedia for the first time.
- Molecular modeling and visualization software
- Help:Quiz offers help on how to set up quizzes in Proteopedia.
Proteopedia Page Contributors and Editors (what is this?)
Eric Martz, Jaime Prilusky, Wayne Decatur, Eran Hodis, Joel L. Sussman, Ann Taylor, Arthur Cox, Karl Oberholser
