Sandbox 1742: Difference between revisions

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==Protein Secondary Structure: Model 1==

<StructureSection load='Dunham-Peptide1.pdb' size='580' side='right' caption='Model 1' scene='<scene name='79/796888/Peptide-1-ball-and-stick/1'>~~Peptide-1~~</scene>'>

This structure represents ~~an 11-amino acid peptide from~~ the ~~middle of a protein~~. Use the green links in the text below to view different representations of ~~this peptide~~ and to help you answer the questions in your ~~activity~~ handout.

This structure file in Model 2 represents five water molecules in the liquid state. Use the green links in the text below to view different representations of these water molecules and to help you answer the questions in your Activity #1 handout.

== Representations==

The default representation is called <scene name='79/~~796888~~/~~Peptide-1-ball~~-and-stick/1'>~~Peptide-1</scene>'> and contains all of the heteroatoms in the structure.~~

The default representation is called <scene name='79/795974/Ball-and-stick/1'>"ball-and-stick"</scene>.

~~Another view that may be useful it to view the~~ ball-and-stick ~~version of the structure with just the <scene name='79/796888/Peptide-1-backbone-b-and-s/1'>backbone atoms~~</scene>.

Another very common representation is known as "spacefill". Explore the different levels of "spacefill" for these molecules including:<scene name='79/795974/Spacefill_20/1'>spacefill 20%</scene>, <scene name='79/795974/Spacefill_50/1'>spacefill 50%</scene>, and <scene name='79/795974/Spacefill_100/1'>spacefill 100%</scene>.

Sandbox 1742: Difference between revisions

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@@ Line 1: / Line 1: @@
 ==Protein Secondary Structure:  Model 1==
-<StructureSection load='Dunham-Peptide1.pdb' size='580' side='right' caption='Model 1' scene='<scene name='79/796888/Peptide-1-ball-and-stick/1'>Peptide-1</scene>'>
+<StructureSection load='Dunham-Peptide1.pdb' size='580' side='right' caption='Model 2' scene='<scene name='79/796888/Peptide-1-ball-and-stick/1'></scene>'>
-This structure represents an 11-amino acid peptide from the middle of a protein. Use the green links in the text below to view different representations of this peptide and to help you answer the questions in your activity handout.
+This structure file in Model 2 represents five water molecules in the liquid state.  Use the green links in the text below to view different representations of these water molecules and to help you answer the questions in your Activity #1 handout.
 == Representations==
-The default representation is called <scene name='79/796888/Peptide-1-ball-and-stick/1'>Peptide-1</scene>'> and contains all of the heteroatoms in the structure.
+The default representation is called <scene name='79/795974/Ball-and-stick/1'>"ball-and-stick"</scene>.
-Another view that may be useful it to view the ball-and-stick version of the structure with just the <scene name='79/796888/Peptide-1-backbone-b-and-s/1'>backbone atoms</scene>.
 Another very common representation is known as "spacefill".  Explore the different levels of "spacefill" for these molecules including:<scene name='79/795974/Spacefill_20/1'>spacefill 20%</scene>, <scene name='79/795974/Spacefill_50/1'>spacefill 50%</scene>, and <scene name='79/795974/Spacefill_100/1'>spacefill 100%</scene>.