Questions tagged [pymol]
For questions about using the PyMOL molecular visualization program distributed by Schrodinger.
7
questions
3
votes
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answer
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How to find the smallest distance between 2 residues in Pymol?
I am very new to Pymol and was trying to figure out how I can find the largest distance between 2 residues. Using just the basic distance function I get multiple distances which is not very useful in ...
4
votes
1
answer
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Why is this source code giving incorrect RMSD value?
Aligning PDB structures with Biopython
The following source code is obtained from the above link:
...
- 2,352
5
votes
0
answers
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How to make idealized infinite alpha helix or beta sheet?
I'm interested in studying some simple periodic model systems representing proteins. For that I'd like to make pdb files of an alpha helix or beta sheet with idealized coordinates which is infinitely ...
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6
votes
2
answers
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How to show orientation axis in Pymol
Is there a way to show the orientation axis in Pymol?
It's something like this in VMD. I much prefer Pymol rendering.
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7
votes
0
answers
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Pymol is not opening after startup [closed]
I installed open-source pymol software using miniconda4 which have been installed successfully. I worked with the software, but whenever I am shutting down my PC and again restarted, the >pymol ...
- 101
6
votes
1
answer
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How to show electrostatic interactions in Pymol or other on the wanted residue
I have the following Pymol visual,
The green molecule is receptor and red/yellow is the ligand.
In the ligand I highlighted Lysine (K) residue as yellow.
What I want to do is to highlight and draw ...
- 1,674
16
votes
2
answers
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Open Source PyMol Conda Package: UnsatisfiableError
I'm having an issue installing the open-source version of Pymol using Anaconda on Windows. I have Python 3.8.3 installed and when I try to add the package with Conda using ...
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