Dear all,I want to show amino acids in a structure according to their
flexibility (B factor) by gradually changed colors. Can pymol do this? Thanks.
Yeping Sun
Institute of Microbiology, Chinese Academy of Sciences
--
Spon
I can show an atom as a sphere, and then scale that sphere to 0.5.
I can show an atom as dots, but then cannot scale the volume of those “dots” to
0.5. There is no dot_scale command in PyMOL.
Is there anyway to scale the volume of the dots in some way?
H. Adam Steinberg
7904 Bowman Rd
Lodi, WI
Hi Adam,
alter all, vdw*=0.5
rebuild
Cheers,
Thomas
On 09 Dec 2013, at 14:51, H. Adam Steinberg wrote:
> I can show an atom as a sphere, and then scale that sphere to 0.5.
> I can show an atom as dots, but then cannot scale the volume of those “dots”
> to 0.5. There is no dot_scale command
Hi Yeping,
use the spectrum command:
PyMOL> spectrum b, blue_white_red
http://pymolwiki.org/index.php/Spectrum
Cheers,
Thomas
On 09 Dec 2013, at 11:30, sunyeping wrote:
> Dear all,
>
> I want to show amino acids in a structure according to their flexibility (B
> factor) by gradually chan
Works perfectly! Thank you so much!
On Dec 9, 2013, at 2:43 PM, Thomas Holder wrote:
> Hi Adam,
>
> alter all, vdw*=0.5
> rebuild
>
> Cheers,
> Thomas
>
> On 09 Dec 2013, at 14:51, H. Adam Steinberg
> wrote:
>
>> I can show an atom as a sphere, and then scale that sphere to 0.5.
>> I can
Hi, professor Holder,Thank you for the reply, but how can I do this on the
level of individual amino acids in stead of atom? I have two homolog stuctures
and I want to map the difference between the b factors of the corresonding
residues of these two stuctures rather than individual atoms. And I
