File:4gms colors.png: Difference between revisions
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Jaredsampson (talk | contribs) (Prepared in response to a pymol-users thread from 11/30/2018-12/5/2018 about the appearance of transparency in a published figure. Script to reproduce: bg_color white fetch 4gms, async=0 # hemagglutinin selections select ha, chain A select l130, ha...) |
Jaredsampson (talk | contribs) (formatting for script) |
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| Line 3: | Line 3: | ||
Script to reproduce: | Script to reproduce: | ||
bg_color white | bg_color white | ||
fetch 4gms, async=0 | fetch 4gms, async=0 | ||
# hemagglutinin selections | # hemagglutinin selections | ||
select ha, chain A | select ha, chain A | ||
select l130, ha and resi 133-138 | select l130, ha and resi 133-138 | ||
select l150, ha and resi 155-163 | select l150, ha and resi 155-163 | ||
select h190, ha and resi 187-196 | select h190, ha and resi 187-196 | ||
select l220, ha and resi 225-228 | select l220, ha and resi 225-228 | ||
select loops, l130 or l150 or h190 or l220 | select loops, l130 or l150 or h190 or l220 | ||
# antibody selection | # antibody selection | ||
select h2, chain H and resi 51-59 | select h2, chain H and resi 51-59 | ||
deselect | deselect | ||
# basic view | # basic view | ||
hide everything | hide everything | ||
as cartoon, ha | as cartoon, ha | ||
as cartoon, h2 | as cartoon, h2 | ||
cartoon tube | cartoon tube | ||
# colors | # colors | ||
color orange, h2 | color orange, h2 | ||
color palecyan, ha | color palecyan, ha | ||
color deepteal, loops | color deepteal, loops | ||
set_view (\ | set_view (\ | ||
-0.718157351, 0.514449000, -0.468602538,\ | |||
-0.667115033, -0.317360103, 0.673974276,\ | |||
0.198008969, 0.796632588, 0.571111977,\ | |||
0.000045628, -0.000060942, -75.169761658,\ | |||
20.388980865, -23.567779541, 38.543788910,\ | |||
52.026283264, 98.326217651, -20.000000000 ) | |||
set ray_opaque_background, 1 | set ray_opaque_background, 1 | ||
png 4gms_colors.png, height=800, width=800, ray=1 | png 4gms_colors.png, height=800, width=800, ray=1 | ||
Latest revision as of 23:07, 5 December 2018
Prepared in response to a pymol-users thread from 11/30/2018-12/5/2018 about the appearance of transparency in a published figure.
Script to reproduce:
bg_color white
fetch 4gms, async=0
# hemagglutinin selections
select ha, chain A
select l130, ha and resi 133-138
select l150, ha and resi 155-163
select h190, ha and resi 187-196
select l220, ha and resi 225-228
select loops, l130 or l150 or h190 or l220
# antibody selection
select h2, chain H and resi 51-59
deselect
# basic view
hide everything
as cartoon, ha
as cartoon, h2
cartoon tube
# colors
color orange, h2
color palecyan, ha
color deepteal, loops
set_view (\
-0.718157351, 0.514449000, -0.468602538,\
-0.667115033, -0.317360103, 0.673974276,\
0.198008969, 0.796632588, 0.571111977,\
0.000045628, -0.000060942, -75.169761658,\
20.388980865, -23.567779541, 38.543788910,\
52.026283264, 98.326217651, -20.000000000 )
set ray_opaque_background, 1
png 4gms_colors.png, height=800, width=800, ray=1
File history
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| Date/Time | Thumbnail | Dimensions | User | Comment | |
|---|---|---|---|---|---|
| current | 23:04, 5 December 2018 |  | 800 × 800 (289 KB) | Jaredsampson (talk | contribs) | Prepared in response to a pymol-users thread from 11/30/2018-12/5/2018 about the appearance of transparency in a published figure. Script to reproduce: bg_color white fetch 4gms, async=0 # hemagglutinin selections select ha, chain A select l130, ha... |
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