[Chimera-users] A question about "Distance Measure"【2】

[Elaine Meng]

It does not make sense that your atoms are all named -1.  That suggests something is wrong with your input file(s).  You would need to correct your input files to the proper format before opening them in Chimera.

If they are in PDB format, for example, there are descriptions of proper PDB format here:

<https://rbvi.ucsf.edu/chimerax/docs/user/formats/pdbintro.html>
<https://www.wwpdb.org/documentation/file-format>

Elaine
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Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Feb 3, 2023, at 7:51 PM, squirrel via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
> 
> Dear Ms/Mr：
> Thanks to your reply. 
> In the last  mail, I ask for your help and I am appreciate your detailed description.
> This is the content of last mail: 
> "I meet a problem recently. Every proteins have N-terminations and C-terminations, and I want to measure the distance between all proteins at each other's N-C, N-N, and C-C terminals by using UCSF Chimera. But there are too many proteins for me to start.I've read Chimera's tutorials and searched my questions online. But I didn't find the answer I needed.Can you please give me some guidance or tips？"
> 
> Now I would like to add some new information and have two new questions I would like to consult you. I want to measure the end distances of many proteins within a model. Because there are so many proteins, it is not practical to measure them one by one. So I want to ask if you use the command line method to measure the distance of multiple proteins. 
> In addition, I tried to follow your guidance and found that the measured atoms name showed -1, so I couldn't confirm which atom was the distance between them, and I am puzzled how I should change the name.
> 
> <UA~XBKWV)IBIO}]4OQ at UZG3.png> 
> 
> Looking forward to your reply.♥
>