UCSF chimera
From CSBLwiki
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==Examples== | ==Examples== | ||
- | + | ;NABH | |
<pre> | <pre> | ||
alias active1 #0:52,207,265; | alias active1 #0:52,207,265; | ||
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match #3:1001@O5,C1,C2,O5,C3,C4,O3 #2:375.A@O5,C5,C4,O5,C3,C2,O3 | match #3:1001@O5,C1,C2,O5,C3,C4,O3 #2:375.A@O5,C5,C4,O5,C3,C2,O3 | ||
</pre> | </pre> | ||
- | + | :Fig.3 in the BBRC draft | |
<pre> | <pre> | ||
arg51 | arg51 | ||
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</pre> | </pre> | ||
- | + | :Movie [http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/movie.html commands] | |
- | + | :[http://www.cgl.ucsf.edu/chimera/tutorials/movies09/moviemaking.html '09 tutorial] |
Revision as of 16:11, 17 July 2011
Popular command
- focus
- alias
Presets
- for residues within 3.6 Å of a ligand residue or metal ion ( ligand zr<3.6)
Examples
- NABH
alias active1 #0:52,207,265; alias contact1 #0:222.B,224.B,235.B,264.B; alias contact2 #0:358-359; alias contact #0:222,224,235,264,359,361; alias gal #0:gla; alias active ligand z<3.5 & ~ligand & ~solvent; alias active ligand z<3.5 & ~ligand & ~solvent & without CA/C1'; alias loop #:351-366; select active & without CA/C1'; sel ligand zr<3.5 & solvent zr<3.5 & ~ligand & ~solvent
match #3:1001@O5,C1,C2,O5,C3,C4,O3 #2:375.A@O5,C5,C4,O5,C3,C2,O3
- Fig.3 in the BBRC draft
arg51 tyr335 gln361b glu265 his264 asp207 lys222 arg235 glu224 ala356b ser358b tyr359b trp89 phe87 sel #0,1:.A color gold #0; color cyan #1 sel :51,52,335,361,265,264,207,222,235,224,358,359,89,87 sel #0:GLA.A; focus #0:GLA.A; col magenta #0:GLA.A colordef tgold 1 .843 0 .2; colordef tcyan 0 1 1 .15; color tgold,r #0; color tcyan,r #1; ribscale slim colordef tblue 0 0 1 .15; color tblue,r #2; ==== ahgA sel #2:96,97,134,132,309,269,280,381,252,267,310 color skyblue === sel #1:74,127,249
- Movie commands
- '09 tutorial