Re: [PyMOL] [EXTERNAL] How to color based on b-factor for all the frames in one object in Pymol?

[Tamas H. <bio...@gm...>]

You may write and use a script after splitting the object.

a pseudo code:

for i in range(1, 1001):
     spectrum b, rainbow, frame_i
     enable frame_i
     sleep sometime
     disable frame_i

On 8/31/20 12:56 PM, ZHANG Cheng wrote:
> Hi Blaine,
>
> Thank you for your suggestion. "set all_states, on" could not work.
>
> For splitting the object, it is an alternatve. But I have 1000 frames 
> in the object, and I want to show a movie by playing the frames.
>
> Best
> Cheng
>
>
> ------------------ Original ------------------
> *From:* "Mooers, Blaine H.M. (HSC)" <Bla...@ou...>;
> *Date:* Mon, Aug 31, 2020 06:13 PM
> *To:* "ZHANG 
> Cheng"<272...@qq...>;"pymol-users"<pym...@li...>;
> *Subject:* RE: [EXTERNAL] [PyMOL] How to color based on b-factor for 
> all the frames in one object in Pymol?
>
> Hi ZHANG Cheng,
>
> Did you try?
>
> set all_states, on;spectrum b
>
> Another approach would to split the states into separate objects and 
> then apply the
> spectrum command to each object.
>
> split_states protein.pdb; prefix=test;spectrum b,,test*
>
> Best regards,
>
> Blaine
>
> Blaine Mooers, Ph.D.
> Associate Professor
> Department of Biochemistry and Molecular Biology
> College of Medicine
> University of Oklahoma Health Sciences Center
> S.L. Young Biomedical Research Center (BRC) Rm. 466
> 975 NE 10th Street, BRC 466
> Oklahoma City, OK 73104-5419
>
> ________________________________________
> From: ZHANG Cheng [272...@qq...]
> Sent: Sunday, August 30, 2020 4:40 PM
> To: pymol-users
> Subject: [EXTERNAL] [PyMOL] How to color based on b-factor for all the 
> frames in one object in Pymol?
>
> I load a protein.pdb file into Pymol. This file has multiple frames 
> (or states), and with different b-factor values at different frames at 
> the PDB file b-factor columns.
>
> After running the "spectrum b" command, the colouring is only based on 
> the last state of the object.
>
> So can I colour the frames differently using their corresponding 
> b-factor values? In that case, I can see the colour changing 
> throughout the frame playing.
>
>
>
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