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> What do we have annotated as "residue extensions"
I cheated and looked in the GAF file rather than querying Chado. There are 15 annotations with a `residue()` or `modified_residue(…
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### What happened?
https://github.com/Asek3/Oculus/assets/122650088/c886f109-4451-4259-b61c-33b3d0b66919
I‘’m not good at describing this bug in professional language。So please watch this video.…
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Hi all,
I would like to use the pdb2pqr to protonate the H of my protein. (pdb:1hbn). I would like to add H reliably using the pKa value.
My protein has 5 non standard residues and i have a…
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It is not complete!
missing: residues from id=12 to id=20 and hydrogens .
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Considering a peptide sequences, the SERINE residue is recognized and converted correctly (from Smiles string to any 3D structure) at any position EXCEPT the last one.
In other words. when its smiles…
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Be able to identify all the residues within a cutoff distance of a specified residue, and then do the pairwise analysis with each of them. Or if the choose multiple residues feature was in place, all…
ifd3f updated
2 years ago
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Is diffusion model integrated in instanovo v1.0.0 such that we no longer need to run instanovo+ as we did in v0.1.7?
If not, and we would like to use instanovo+ after instanovo, we need to run inst…
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Some residues at the beginning and at the end of the chains are missing in the mesh.
If you compare a cartoon mesh from pymol/VMD/avogadro... and the mesh created by ribbon.go, you can see that som…
nezix updated
6 years ago
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Is there a way to use json-mapper to determine the unmapped residue? That is, if I create a converter and I map a bunch of fields from one JSON format into a target format, is there a way to get a li…
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I am trying to design an interface, but the amino acids I am getting are almost completely polar, which is weird for an interface. Am I missing something? Is there something one should consider when d…