Jmol/Visualizing membrane position
From Proteopedia
(Difference between revisions)
| Line 5: | Line 5: | ||
<font color="blue"><b>In</b>side</font> | <font color="blue"><b>In</b>side</font> | ||
</td></tr></table></span> | </td></tr></table></span> | ||
| - | :1. <scene name='78/784276/Opm2/ | + | :1. <scene name='78/784276/Opm2/5'>Pseudoatoms</scene> represent the water-lipid boundaries. <font color='red'>Red</font> pseudoatoms represent the extracellular boundary, and <font color='blue'>blue</font> pseudoatoms represent the cytoplasmic boundary. |
| - | :2. A <scene name='78/784276/Opm2/3'>translucent cylinder</scene> represents membrane near the protein. | + | :2. A <scene name='78/784276/Opm2/3'>translucent cylinder</scene> represents membrane near the protein. If desired, <scene name='78/784276/Opm2/6'>the ends of the cylinder can be colored similarly to the pseudoatoms</scene>. |
<scene name='78/784276/Opm2/4'>When we apply</scene> a <font color="#a0a0a0"><b>hydrophobic</b></font> vs. <font color="magenta"><b>polar</b></font> color scheme, the protein within the lipid bilayer is seen to have a largely hydrophobic surface. | <scene name='78/784276/Opm2/4'>When we apply</scene> a <font color="#a0a0a0"><b>hydrophobic</b></font> vs. <font color="magenta"><b>polar</b></font> color scheme, the protein within the lipid bilayer is seen to have a largely hydrophobic surface. | ||
Revision as of 23:14, 29 March 2018
| |||||||||||
