Ah, or just use
slab set
depth set
that is:
load 1crn.pdb
depth 45
slab 55
slab on
slab set
depth set
[ now slab and depth are fixed internally, not based on the screen ]
Then, to turn all that off, use
slab reset
Bob
On Sat, Jan 24, 2015 at 10:12 AM, Robert Hanson <hans...@stolaf.edu> wrote:
>
>
> On Fri, Jan 23, 2015 at 5:30 PM, Eric Martz <ema...@microbio.umass.edu>
> wrote:
>
>> OK then Bob, sounds like we can come close.
>>
>> How would I restrict to the atoms between the planes of e.g. depth 45 and
>> slab 55? I could then rotate that restricted "slab" of atoms, even though
>> the atomic edges would not be flat where they intersect the slab planes.
>>
>>
> load 1crn.pdb
> depth 45
> slab 55
> refresh
> dp = _depthPlane
> sp = _slabPlane
> print dp
> print sp
> display within(-1000,plane, @{_slabPlane}) and within(1000,plane,
> @{_depthPlane})
>
> sorry about the refresh being needed -- that will be fixed.
>
>
>
>> And how would I make a translucent van der Waals isosurface (pretty close
>> to spacefill) and slab it and rotate the slab containing the restricted
>> (opaque) atoms?
>>
>
> isosurface s1 vdw
> isosurface slab none slab -@dp slab @sp
>
>
>>
>> Eric
>>
>>
--
Robert M. Hanson
Larson-Anderson Professor of Chemistry
Chair, Department of Chemistry
St. Olaf College
Northfield, MN
http://www.stolaf.edu/people/hansonr
If nature does not answer first what we want,
it is better to take what answer we get.
-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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