User:Eleanor Crabb/Sandbox 1
From Proteopedia
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<applet load='1z3a' size='300' frame='true' align='right' caption='Insert caption here' />This page is designed to be an introduction to protein structure and the 3D visualisation package JMOL used here in Proteopedia and also on the Protein Data Bank to visualise proteins. | <applet load='1z3a' size='300' frame='true' align='right' caption='Insert caption here' />This page is designed to be an introduction to protein structure and the 3D visualisation package JMOL used here in Proteopedia and also on the Protein Data Bank to visualise proteins. | ||
| - | The interactive image on the right shows the protein with the pdb code 1z3a. You | + | The interactive image on the right shows the protein with the pdb code 1z3a. You can rotate the molecule using your mouse and zoom by holding down the shift key while you move the mouse. |
| - | + | You will note that in this protein, there are two chains shown in green and blue. Let us concentrate on just a <scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_single_chain/1'>single chain</scene>, chain A. To see this click on the link in green. | |
| - | This is a cartoon representation of the protein | + | This is a cartoon representation of the protein, showing a schematic representation of the back bone of the protein. You may be more familiar with the following molecular representations (note that the H atoms are not shown): |
| - | <scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_a_sfllcolour/1'> | + | *<scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_a_sfllcolour/1'>space- filled</scene> - this gives an indication of the size and shape of the protein |
| + | *<scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_a_ballcolour/1'>ball and stick</scene> | ||
Let us now look at just a single length of the chain. | Let us now look at just a single length of the chain. | ||
<scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_single_helix_ball/1'>chain A ball and stick</scene> | <scene name='User:Eleanor_Crabb/Sandbox_1/1z3a_single_helix_ball/1'>chain A ball and stick</scene> | ||
Revision as of 21:47, 18 September 2009
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The interactive image on the right shows the protein with the pdb code 1z3a. You can rotate the molecule using your mouse and zoom by holding down the shift key while you move the mouse.
You will note that in this protein, there are two chains shown in green and blue. Let us concentrate on just a , chain A. To see this click on the link in green.
This is a cartoon representation of the protein, showing a schematic representation of the back bone of the protein. You may be more familiar with the following molecular representations (note that the H atoms are not shown):
- - this gives an indication of the size and shape of the protein
Let us now look at just a single length of the chain.
If we now draw a line through the backbone of the chain Let us return to the whole chain. The arrangement of the residues is the primary structure - coloured according to . Secondary structure
