MODELING PROTEINS, ENZYMES, ANDHOW WATER DRIVES STRUCTURE/FUNCTION

LEARNING OBJECTIVES

Educators attending this workshop will:

➢Utilize tools that support NGSS student learning outcomes of three dimensional lesson design including -

➢Molymods to model basic amino acid structure and build a dipeptide

➢Amino Acid Starter Kit© to simulate protein folding

➢Enzymes in Action © to demonstrate enzymatic specificity and actions

➢Acetylcholinesterase Active Site Cube © to apply knowledge of protein structure/function to an observed environmental phenomenon

➢ Landscapes of David Goodsell © to apply multiple representations to a concept

➢ Learn something new and interesting for your own professional development.

➢HAVE FUN!

LEARNING OBJECTIVES

What NGSS dimensions will be targeted?

SEPs CCCs DCIs

Asking questions PatternsPS1.A: Structure and

properties of matter

Developing and using models Cause and effect PS1.B: Chemical reactions

Constructing explanationsScale, proportion, and

quantityLS1.A: Structure and function

Structure and functionLS2.C: Ecosystem dynamics,

functioning, and resilience

the Mosquito

Protein Structure versus . . .

Engage!https://www.orkin.com/other/mosquitoes/

https://cdn.rcsb.org/pdb101/learn/resources/what-is-a-protein/what-is-a-protein.pdf

Amino Acids:Building Blocks for Proteins

Explore! Explain!

Amino Acids:D and L Forms of Amino Acids

Extend!http://www.phschool.com/science/biology_place/biocoach/bioprop/landd.html

Building a Dipeptide

The Protein Folding Problem

Beware student preconceptions about protein folding!

Amino acid #1

Amino acid #2

http://www.biochem.ucl.ac.uk/~martin/c40/peptide.html

Modeling Protein Structure

Elaborate!

Identify and Sort the R Groups

SortIdentify

Modeling the Primary Structure

➢ 2 cysteine side chains (green).

➢ 2 acidic side chains (red).

➢ 2 basic side chains (blue).

➢ Your favorite 3 hydrophilic amino acids (white).

➢ Your favorite 6 hydrophobic amino acids (yellow).

➢ Randomly distribute them on the TOOBER. (Space them about three inches apart to get an even distribution).

You will need 15 total side chains:

Modeling Tertiary Structure

Fold your protein according to basic principles of chemistry and physics:

➢ In an aqueous environment, where do you expect the hydrophobic side chains to fold? Why?

➢ Likewise, consider where the hydrophilic side chains would fold.

➢What interaction may occur between acidic and basic amino acids?

➢What interaction may occur between cysteineamino acids?

Modeling Secondary Structure

Beta Sheets

Alpha HelicesWhy are secondary structures important to protein structure/function?

Modeling Quaternary Structure

Hemoglobin

Modeling Enzyme Action: Catabolism

Extend!https://www.khanacademy.org/science/biology/energy-and-enzymes/introduction-to-enzymes/a/activation-energy

Modeling Enzyme Action: Anabolism

Extend!

Modeling Enzyme Action: Specificity

Extend!

Competitive Inhibition Noncompetitive Inhibition

Modeling Inhibition

Extend!

the Mosquito

Protein Structure versus . . .

Engage!https://www.orkin.com/other/mosquitoes/

https://cdn.rcsb.org/pdb101/learn/resources/what-is-a-protein/what-is-a-protein.pdf

Neuromuscular SignalingA Landscape from David Goodsell

https://www.education.com/

A Molecular Story:Acetylcholinesterase!

Resources!http://www.rcsb.org

http://pdb101.rcsb.org/

Resources!

THANK YOU!

How Can I Get These Great Models?

Purchase from 3D Molecular Designs

https://www.3dmoleculardesigns.com/Education-Products.htm

using your 20% show special discount: SC19

Borrow from the Model Lending Library:

http://cbm.msoe.edu/lendingLibrary/index.php

THANK YOU!

For more molecular stories. . .

Come visit us at booths 1267 and 1269!

We hope to see you soon!