WebLab Viewer Isis Draw

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WebLab Viewer ? Isis Draw ????

• Ta-Wei Li
• NCTU

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Todays Job

• Draw Hexa-Methionine (Met6 short protein)
• Draw Met12

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What is protein?

• Protein is polymer of Amino Acids.

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What is Methionine?
Side Chain
Backbone
It is one of amino acids.
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What is Hexa-Methionine (Met6)
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Amino Acids ? Protein
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Use Templates in ISIS Draw

• Open ISIS Draw
• Select Templates Amino Acids
• Click N in Methionyl

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Draw Met2 on ISIS Draw

• At any empty space, click once to get a single
  methionine.
• Now, click C in CO to get Met2, such as

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Draw Met6 on ISIS Draw

• Continue to click C in CO to get Met3, and then
  Met4, Met5, Met6.
• Click Select tool
• Select the whole molecule
• Then, Select Edit Copy

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3D View of Met6

• Open WebLab
• Select Edit Paste
• Click Clean twice
• Click Add Hydrogens
• Click Clean twice
• Please identify the position of red square

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Copy, Paste and Move Met6

• Select Edit Select All
• Select Edit Paste
• Select Translate Tool
• Both push Ctrl and drag the mouse to move
  yellow-spotted molecule up for some distance such
  as

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2 Met6 ? Met12

• Please identify N and C terminals for both two
  Met6
• Select Sketch
• Click a C terminal on one Met6 and a N terminal
  on another Met6 to get Met12
• Then click Clean to get helix structure of Met12

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Measure the Pitch of Helix
N
One Pitch
N
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Keep Cleaning Structure

• Remember the distance of the pitch
• Keep on cleaning the helix structure of Met12
  until that the pitches are not changed

Energy
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Homework 6

• 1. What is the average distance of the pitch?
• 2. How many methionine residues are in one pitch?
• 3. Are there any H-bonding in Met12? (Please
  select Tools Monitors Hbond to investigate
  H-bond)
• 4. Please draw 3-D structure of the following
  molecules?

Guanine and Cytosine in Bases of Templates
Fused Ring in Templates