PROTEIN MODEL CHALLANGE by n7YOgrT

VIEWS: 7 PAGES: 12

									PROTEIN
MODEL
CHALLANGE

 Lin Wozniewski
  lwoz@iun.edu
 What the Student Need to Bring

 The Pre-build
 Something to Write With
 Up to 10 8.5 X 11” pages with whatever
  references they want

What MSOE will Provide
 The Test
 The Test Answers
 The Pre-build Scoring Rubric
 The On-Site Build Toobers
 On-Site Build Scoring Rubric
WHAT THE EVENT SUPERVISOR NEEDS TO
PROVIDE

 Enough expertise to be able to interpret and
  apply the rubric.
 Computers for the Students with one of the 3
  options for allowing the students access to the J-
  Mol program
      Internet access to the J-Mol Program from MSOE
      Installation of the J-Mol Program on the computers
      Access to a CD with the J-Mol Program on it

   Rulers or meter sticks
WHAT THE STUDENTS NEED TO DO
 Read the article on the molecule they will be
  modeling
 Visit the J-Mol website and determine how many
  amino acids are in the molecule and their order
 Learn what the side chains of the various amino
  acids are and what they do
 Divide the toober or other material up into
  approximately 2 cm segments to correspond to
  the number of amino acids in the protein
 Label the amino acids on the chain in order.

 Fold the protein according to the 3-d model at the
  appropriate places
WHAT THE STUDENTS NEED TO DO
 Add creative items to emulate the side chains
  and form appropriate intramolecular bonds (side
  chains are ONLY to be attached to those amino
  acids that form the bonds that hold the tertiary
  structure together & the active site)
 Learn the difference between acid and basic side
  chains
 Learn the difference between hydrophobic and
  hydrophilic side chains
 Learn about hydrogen bonding and sulfur
  bonding
 Learn the difference between primary, secondary,
  and tertiary protein structure
THE COMPETITION
 Students will bring their pre-built models to the
  assigned impound
 Students will sit at a computer and build a
  portion of the model with the toober provided
  using the J-Mol program
 Students will answer questions on a test

 The test will cover
     General amino acid structure
     Protein primary, secondary, and tertiary structure
     Specifics about the particular protein being studied
Amino Acids
 There are 20 amino acids that
  make up the proteins
 Amino Acids are a backbone of a
  protein & consist of:
 Nitrogen atom with 2 Hydrogen      Nitrogen
  atoms (the Amine side)
 A carbon atom, on which the side
                                     Amino Group


  chain is hooked
 Another carbon atom with a
  double bonded oxygen and a
  hydroxyl group (The Carboxylic
  Acid side)
    Side Chains



 Side chains are classified as Hydrophobic – water hating
  or Hydrophilic – water loving depending on what is in the
  side chains
 Side Chains that have only carbon and hydrogen atoms
  are Hydrophobic & tend to be buried inside the protein
  away from the water when it is folded. They are non-polar
 Side chains that have hydroxyl, carboxylic acid, or amine
  groups are Hydrophilic & are generally on the outside of
  the protein when it is folded. These can be acidic or basic,
  or just polar
Primary Structure of a Protein
 The Primary Structure of the Protein is the
  actual order of the amino acids in the protein.
 This is the next thing the students must
  determine after they learn about amino acids &
  the side chains
           Lys- Glu-Thr-Arg-Arg-Arg-Lys-etc.
Secondary Structure of a Protein
 The 2 most common types of secondary structure
  are the alpha helix and beta pleat
 The alpha helix ONLY coils right-handed (if you
  are going up the stairs, your right hand rests on
  the outside banister going up)
 The beta pleat should bend back and forth in a
  zigzag pattern of about 20 at each start of a new
  amino acid

                                            Alpha Helix
    Beta Pleat
Tertiary Structure of a Protein
 The tertiary structure of the protein is the final
  folding that is the result of the molecular
  interactions formed by the primary and
  secondary structure.
 This is determined using the J-Mol program.

 What a finished pre-build might look like


                     Pipe Cleaner




Toober
                                           12 Gauge Wire
Resources
   MSOE has a lending library available where
    toobers can be sent for to use for a few days in
    the classroom
       www.rpc.msoe.edu/cbm/lib.
   J-Mol Program
       http://bioportal.weizmann.ac.il/oca-
        docs/fgij/index.htm
   MSOE
       www.rpc.msoe.edu/cbm/scienceolympiad

								
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