Transcript Alpha Helix/Beta Sheet Collection

American Society of Cell Biology
46th Annual Meeting
K12 Science Partnership Lunch
Tactile Teaching:
Exploring the Molecular World with Physical Models of Proteins
and Other Molecular Structures
by
Tim Herman and Margaret Franzen
Milwaukee School of Engineering
Center for BioMolecular Modeling
www.rpc.msoe.edu/cbm
The MSOE Center for BioMolecular Modeling
• We make physical models of molecular
structures, using rapid prototyping
technology.
• Science Education Outreach Mission
• Professional Development Program for High
School Science Teachers
• Undergraduate Curriculum Development
www.rpc.msoe.edu/cbm
Protein Models….in 4 Easy Steps
Any image that can be
created in the computer
environment
of RasMol,…
x,y,z coordinates
Protein Data Bank
Ply/Stl file
RP-RasMol
… can now be converted
to a physical model by
rapid prototyping.
Z Corp 3D-Printer
A Protein Model Starts with its PDB File.
From the Protein Data Bank at www.pdb.org
ATOM
ATOM
ATOM
ATOM
ATOM
ATOM
ATOM
ATOM
1
2
3
4
5
6
7
8
N
CA
C
O
CB
OG
N
CA
SER
SER
SER
SER
SER
SER
LYS
LYS
1833 Total Atoms
2
2
2
2
2
2
3
3
X
30.025
28.952
27.609
27.526
29.255
28.067
26.559
25.219
Y
8.937
9.913
9.398
8.372
11.278
11.842
10.149
9.795
239 amino acids
Z
50.567
50.747
50.264
49.583
50.115
49.558
50.603
50.206
MOLECULAR CAD…
...its all about triangles.
A Heme Group
Each triangle,--3 points and a vector
Powerful
Physical Models areqThinking Tools
Physical Models
• are (almost) universally effective in
capturing students’ interest
• allow you to “see” things that are
not obvious in computer-generated
images.
• stimulate questions.
• are synergistic with computer
visualization tools
www.rpc.msoe.edu/cbm
Exploring the Models I
Water Kits…
Because:
• Life happens in water.
• Proteins fold in water.
Amino Acid Starter Kit
• How does a protein know what
shape to fold up into?
• The basic laws of chemistry
that drive protein folding.
www.rpc.msoe.edu/cbm
Physical Models and Computer Visualization
--- are Synergistic
Example:
How stringently are the “Chemical Principles that
Govern Protein Folding” applied to real proteins?
--- A Jmol Tutorial --www.rpc.msoe.edu/cbm/resources
www.rpc.msoe.edu/cbm/resources
Science Education Outreach Programs
• NIH SEPA Program
• Summer Course for High School Teachers
• Two Student Enrichment Programs
• SMART Teams
• Science Olympiad Protein Folding event
• NSF-CCLI Curriculum Projects
• Proteins in Active Learning Modules
PALM Workshop – June 2007
www.rpc.msoe.edu/cbm
The PALM Project
Proteins in Active Learning Modules
• An NSF-CCLI Project
Making the Molecular World “Real” through
the use of:
1. Physical Models
2. Computer Visualization Tools (Jmol)
3. Illustrations
4. Flash Animations
5. Graphical Representations of Data
Multiple
Representations
of
Molecular
Structures.
www.rpc.msoe.edu/cbm
Molecular Stories
Compelling molecular stories begin with
Physical Models…
…and are elaborated with an artful combination of
Computer Visualizations
Illustrations
Animations
Graphical Representations of Data
…and a good teacher!
www.rpc.msoe.edu/cbm
Two Molecular Stories
Molecular Gymnastics
Evolution in Action
The Influenza HA Protein
Acetylcholinesterase
How the influenza virus
hemagglutinin protein undergoes
a dramatic conformational change
upon endocytosis, leading to
fusion of the viral and cellular
membranes.
How an effort to control mosquito
populations by spraying with an
insecticide inevitably leads to the
emergence of resistant mosquitoes.
www.rpc.msoe.edu/cbm
The MSOE Model Lending Library
• Physical Model Collections --- in suitcases
• Borrow for two weeks, “just like a book from
Inter-Library Loan”
• No Cost, --- except for return postage.
• In Two Formats:
• Classroom Sets
• Discussion Props / Lab Stations
www.rpc.msoe.edu/cbm/lib
Discussion Props and Lab Stations
• Introduction to Protein Structure
• Serine Protease Collection
• Ribosome Collection
• Membrane Transport Collection
• Zinc Finger Collection
• DNA Collection
• Acetylcholinesterase ~New~
• Immunology Collection ~New~
www.rpc.msoe.edu/cbm/lib
Classroom Sets
• Amino Acid Starter Kit©
• Water Kit© Collection
• NaCl Lattices
• Alpha Helix/Beta Sheet Collection ~New~
• BioInformatics Map of the β-Globin Gene©
• DNA Discovery Kit©
• Mini-Toober β-Globin Folding Kit©
• MHC Class I Collection ~New~
www.rpc.msoe.edu/cbm/lib
The PALM Project
Proteins in Active Learning Modules
A 3-Day Summer Workshop for
Undergraduate Faculty
June 6-8, 2007
Milwaukee School of Engineering
Models / Jmols / Animations / Illustrations
Assessment Instruments
www.rpc.msoe.edu/cbm/courses
3D Molecular Designs
• A Small Business, spun off of the CBM
• A Dual Mission:
• To develop and commercialize innovative
instructional materials
•To create custom protein models for
researchers.
• R&D Program Supported by SBIR awards
• RP-RasMol design software; Water Kit;
DNA Discovery Kit; Paper Bioinformatics
Maps; Beta-Globin Toober Folding Kit etc.
www.3dmoleculardesigns.com
Rapid Prototyping Technology
• An Additive Manufacturing Technology
• A Layer-by-Layer Approach
• Five Technologies
• Sterolithography
• Laminated Object Manufacturing
• Selective laser Sintering
• Fused Deposition Modeling
• Color Z Corporation 3D Printing
www.rpc.msoe.edu/cbm