[Chimera-users] Molecule fusing
goddard at sonic.net
Fri Oct 15 16:02:14 PDT 2010
Yes, if you want to make a density map for a VP7 trimer of rotavirus
and you had 3 monomer VP7 atomic models opened and positioned to make a
trimer in Chimera you would make the map with Chimera command:
molmap #0-2 8
where the monomer model numbers are 0, 1, 2 in this example and the
desired map resolution is 8 Angstroms. As Elaine pointed out, if you
want to make an entire virus capsid map calculated from atomic models
you may run into trouble because Chimera will take too much memory for
the millions of atoms. Still it may be possible, but I would reduce the
atomic models to C-alpha atoms only.
> Hi Sir/Madam
> I want to create models which consist of multiple protein molecules,
> in which the individual protein molecules are fused together to form a
> single structure. Something like the scanning 3D maps produced by
> electron microscopes. Is it possible to do this with the Muliscale
> Models tool or some other tool or method in Chimera?
> An example of what I want to do appears in the cutaway rotavirus
> illustration (Fig. 1A) in Chen and colleagues paper, titled,
> "Molecular interactions in rotavirus assembly and uncoating seen by
> high-resolution cryo-EM" (PNAS, vol. 106. no. 26, p. 10644). In this
> illustration the yellow triangular shaped structure are multiple VP7
> molecules fused together.
> Brian Grech
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