-
Does PyMOL read .glb files? I am trying to import some structures from the AlphaFold Protein Structure Database and my PyMOL keeps crashing. I'm not sure whether the problem is on my end. It seems t…
-
My favorite instance of the Mol* viewer is the one on the PDB website. See example: https://www.rcsb.org/3d-sequence/1NQ2
I think we may want a similar design as this.
Some docs: https://www.rcsb.or…
-
This call
```
protein_meta = pms.annotate(POLR1A_protein_id)
````
leads to this error
```
{
"name": "ValueError",
"message": "A required `transcripts` field is missing in the response fro…
-
Both published yesterday:
Alphafold paper: https://www.nature.com/articles/s41586-021-03819-2
David Baker's paper: https://science.sciencemag.org/content/early/2021/07/14/science.abj8754
I gues…
-
hello, I am curious whether this approach of covalent docking can be extended to non-protein structures like heme and other small molecules.
-
Related to #247 - currently Yank has systembuilder, which probably ought to be split off into a more general-purpose tool that will be useful aside from just for Yank workflows (i.e. setup of GROMACS …
-
Hi Luwei!
I am running the test example, apparently without errors. But this single protein is taking too long (over one hour). Also, while I am using a dedicated GPU (RTX-4090), its utilization is…
-
python zeroshot_predict.py --gnn_model_name k20_h512 --mutant_dataset_dir data/mutant_example/no_exp --result_dir result/no_exp
--------------- ProtSSN k20_h512 ---------------
Processing...
Proc…
-
Hello, you have done a great job and thank you for your contribution to the field of protein-based genome representation.
When I was embedding the genome, I used the sample you provided (test.f…
-
Thanks for your work. However, as I tried to conduct protein structure clustering, the program always returns clusters based on proteins' substructure. I am wondering how can I get the cluster based o…