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Issue using APBS plugin on polysaccharides #398

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NoaBinnes opened this issue Jun 25, 2024 · 0 comments
Open

Issue using APBS plugin on polysaccharides #398

NoaBinnes opened this issue Jun 25, 2024 · 0 comments

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@NoaBinnes
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NoaBinnes commented Jun 25, 2024

Hi,
I am trying to visualize the electrostatic surface of several different kinds of molecules and some of them either contain polysaccharides (for example the protein MUC2, which is often O-glycosylated) or are themselves polysaccharides (such as hyaluronic acid, AKA HA).
The ABPS plugin on PyMol and on the APBS website (see files generated for HA below) does not allow me to show the electrostatic surface of the sugars at all. Is this a bug? Is there a way to make this work? How can I visualize the electrostatic surface of the sugars?
Best regards and thanks in advance.

pdb2pqr.stderr.txt
pdb2pqr.stdout.txt
pdb2pqr-metrics.json
hcdfkw549v.log

@NoaBinnes NoaBinnes changed the title Issue using the APBS plugin on PyMol on polysaccharides Issue using APBS plugin on polysaccharides Jun 25, 2024
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