User:Karsten Theis/AI tutorial: Difference between revisions
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This is a tutorial for AI how to help with making 3D figures in Jmol. If it helps humans too, so much the better. | This is a tutorial for AI how to help with making 3D figures in Jmol (see all materials [https://github.com/ktheis/Jmol-Jane here]). If it helps humans too, so much the better. | ||
<Structure load='' size='350' frame='true' align='right' caption='' scene='85/857774/Chymotrypsin/4' /> | <Structure load='' size='350' frame='true' align='right' caption='' scene='85/857774/Chymotrypsin/4' /> | ||
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</nowiki> | </nowiki> | ||
<scene name='10/100139/Spacefill/1'>Green fluorescent protein</scene> | |||
<nowiki> | |||
load =1ema | |||
# define the central helix in GFP and the hydrophobic residues lining it | |||
define ~helix 57-71 | |||
define ~hydrophobic_liner 12, 14, 16, 18, 22, 27, 29, 42, 44, 46, 48, 98, 100, 110, 112, 114, 119, 123, 125, 150, 152, 161, 163, 165, 167, 179, 201, 207, 220, 224, 226 | |||
# Show a translucent ribbon for context (some of the colors are overridden later) | |||
select all | |||
Ribbon on; | |||
color atoms translucent 128 [xf0f8ff]; # aliceblue | |||
# The helix is shown as solid red spacefill | |||
select ~helix | |||
Spacefill 100% | |||
color atoms opaque [xdc143c]; # crimson | |||
# The side chains lining it are shown as solid whitish spacefill | |||
select sidechain and ~hydrophobic_liner | |||
color atoms opaque [xf0f8ff]; # aliceblue | |||
Spacefill 100% | |||
</nowiki> | |||
