[Chimera-users] Chimera Surface Calculation

Kenward Vaughan kay_jay at earthlink.net
Tue Jul 17 13:32:50 PDT 2012

On Tue, 17 Jul 2012 10:34:54 -0700
Tom Goddard <goddard at sonic.net> wrote:

> Hi Robert,
>    Unfortunately the MSMS molecular surface calculation code has bugs 
> and so it fails to compute surfaces for most large (>10,000 atom) PDB 
> models.  The surface calculation has essentially no chance of working 
> with a model of 110,000 atoms such as your half-virus.  That said I
> used the 64-bit Mac Chimera and split the model by chains and it
> surfaced fine -- see attached image.  The Windows Chimera versions
> have the most surface calculation failures especially 64-bit Windows
> Chimera, and Mac and Linux are substantially better.
>    So I made the image bmv.jpg with "split #0; surf; rainbow model".  

I swear this looks like a piece of broccoli seen from above (and
through blue--or ??--colored glasses ;-) ...

In a completely rational society, the best of us would aspire to be 
_teachers_ and the rest of us would have to settle for something less, 
because passing civilization along from one generation to the next 
ought to be the highest honor and the highest responsibility anyone 
could have.     - Lee Iacocca

More information about the Chimera-users mailing list