Protein Modeling Challenge
for High School Students
Sponsored by
OSI Pharmaceuticals Foundation
Hosted by
Center for Science and Mathematics Education
| Date of Competition: | April 3, 2009, 8:30am to 1:00pm |
| Deadline Date: |
January 21, 2009 |
| Cost: |
$35/team |
(for a printable version of this description: click here)
1. Description: Ribonucleases and protein structure and function are the foci of this competition. The students will build a model of Ribonuclease A at their schools, and April 3 at Stony Brook University, the students will build another model of a portion of ribonuclease A and answer questions about protein chemistry, biology and ribonucleases. You can read more about these enzymes in the September 2008 RCSB Molecule of the Month written by David S. Goodsell (www.pdb.org).
2. Competition: This event has three parts: a pre-built model (Part I), an on-site build model (Part II) and an on-site exam (Part III). Students may not bring any materials or computers of any kind into the on-site competition on April 3.3. Scoring: 40% of the event score will be based on the pre-build protein model (Part I), 30% on the on-site build (Part II) and 30% on the written exam (Part III). The pre-build protein model (Part I) will be scored based on the accuracy and scale of the alpha-helix and beta-sheet secondary structures, other elaborations and enhancements on the protein backbone such as side chains, DNA or associated molecules. The focus of the model should be on creatively telling the story of the molecule’s significance, structure and function. The on-site build protein model (Part II) will be scored based on accuracy of folding the Mini-Toober model and positioning specific amino acid side chains and/or accessory molecules. The exam (Part III) will be scored for accuracy. Ties will be broken using questions on the written exam selected by the event supervisor before the start of the competition.
a. Part I: The Pre-Build Model. Students will build a model of Ribonulease A based on coordinate data in file 1RTA.pdb found at the RCSB Protein Data Bank (www.pdb.org). Registered teams will receive a kit containing a Mini-Toober for building a model at a scale of 2cm/amino acid. Students will represent other important parts of the protein, such as amino acid side chains, DNA or associated molecules, where applicable, with materials of their choosing. The additions to the Mini-Toober® model should focus on illustrating the significance of the structure to the function of the protein. A significant portion of the score will be derived from the creative additions to the Mini-Toober® model. Students must provide a 3x5 note card explaining the creative additions to their model and what they represent. Models must arrive at Stony Brook University by March 25 for judging. The models will be returned.
b. Part II: The On-Site Model. During the on-site competition, students will build a model of a selected region of the ribonuclease A based on 1DJF.pdb. Students will use a computer provided at the competition with the Jmol application, a text editor, PDB file, structure summary page and Molecule of the Month files on it to guide their model construction. Students may only use one of the computers provided at the competition with the above-mentioned files on it to guide their model construction. Any model handed to the judges after the end of the competition time (50 minutes) will not be accepted for scoring.
c. Part III: The On-Site Written Exam. During this section of the competition, students will complete a multiple choice/short answer written exam with questions about the relationship between protein structure and function, with an emphasis on ribonucleases. During the on-site competition, students may use only the materials provided to answer the questions. Question content may not be limited to these materials. Any test papers handed to the judges after the end of the competition time (50 minutes) will not be accepted for scoring.
There are several resources available to help you to prepare for this event and we encourage you to explore these resources.
•MSOE Center for BioMolecular Modeling Science Olympiad website. You can download a powerpoint that goes through the parameters of the event, the RasMol program and written workshop materials to help you prepare for this event: http://www.rpc.msoe.edu/cbm/scienceolympiad/
•MSOE Model Lending Library www.rpc.msoe.edu/lib. You may borrow molecular models that allow you to explore the basics of protein structure. We recommend the IP collection: Introduction to Protein Structure.
1 Mini-Toobers® are products of 3D Molecular Designs, Wauwatosa, WI, www.3dmoleculardesigns.com
For questions, please contact:
Joan Kiely at joan.kiely@stonybrook.edu
UPCOMING EVENTS
July 6-10, 2009: The Center hosts the annual meeting of the NYS Biology-Chemistry Professional Development Network
July 6, 2009: 7th Grade Science Exploration Camp begins
July 13, 2009: Engineering Camp begins
July 13 2009: Biotechnology Summer Camp begins
July 20, 2009: 8th Grade Science Exploration Camp begins
July 27, 2009: Forensics Camp begins
July 27, 2009: High School Math Camp begins
August 3 , 2009: 9th Grade Science Exploration Camp begins