User:Karsten Theis/AI tutorial: Difference between revisions
From Proteopedia
Jump to navigationJump to search
No edit summary |
No edit summary |
||
| Line 95: | Line 95: | ||
<scene name=' | <scene name='10/1076814/Intercalation/1'>Intercalation</scene> | ||
<nowiki> | <nowiki> | ||
load =3k5y | load =3k5y # RNA bound to protein | ||
restrict none | restrict none | ||
select protein and sidechain and within(3.5, RNA and sidechain); | select protein and sidechain and within(3.5, RNA and sidechain); # protein side chain atoms that are close to nucleobases | ||
select within(group, selected) and (alpha or sidechain); wireframe 0.3; | select within(group, selected) and (alpha or sidechain); wireframe 0.3; # entire side chain plus alpha carbon shown | ||
select selected and (alpha or *.CB); color bond gray; | select selected and (alpha or *.CB); color bond gray; # fix bond color between alpha and beta carbon to uniform gray | ||
select alpha; backbone on; color chain | select alpha; backbone on; color chain # entire protein shown as thin backbone | ||
select RNA and sidechain; Spacefill 100%; color atoms red; # Nucleobases shown as red spacefilling (this is the focus of the figure) | |||
select RNA and sidechain; Spacefill 100%; color atoms red; | select RNA and mainchain; Spacefill 0.5; # rest of RNA shown as ball... | ||
select RNA and mainchain; Spacefill 0.5; | select RNA; wireframe 0.3; # and stick (it's fine to show nucleobases as wireframe, too, gets occluded) | ||
center RNA; zoom 200 | center RNA; zoom 200 # center of rotation is RNA so it stays in view | ||
</nowiki> | </nowiki> | ||
