First time at Proteopedia? Click on the green links: they change the 3D image. Click and drag the molecules. Proteopedia is a 3D, interactive encyclopedia of proteins, RNA, DNA and other molecules. With a free user account, you can edit pages in Proteopedia. Visit the Main Page to learn more.
Teaching Scenes, Tutorials, and Educators' Pages
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 that were created under a user's name are protected.
Pages by Educators
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.
- Structural templates -- an introductory tutorial on protein structures
- 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.)
- 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)
- 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.
- Ramachandran plots: User:Karl_Oberholser/Ramachandran_Plots; now unprotected at Ramachandran_Plots (Messiah College, Grantham PA US.)
- Studio:Oxidation by CYP 1A2 A tutorial on the medicinal chemistry of drug metabolism for pharmacy students
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|
|May 2009||Influenza Neuraminidase||1nn2,3b7e,2hu4,1nca,2bat,3cl0|
|April 2009||Oct and Sox Transcription Factors||1gt0,1nkp,2ebt,1o4x|
|January 2009||Tobacco Mosaic Virus||2tmv|
|October 2008||Poly(A) Polymerase||2q66|
|September 2008||Ribonuclease A||1rta|
|August 2008||Selenocysteine Synthase||SelB|
- 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.