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Hello Zaixi,
I've read your paper entitled "Full-Atom Protein Pocket Design via Iterative Refinement" and thought it was an excellent way to de novo generate protein structures given a ligand of in…
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Dear all,
I downloaded the structures from the release [v2023_02 with TM and pLDDT > 70 (71 .tar.gz files)](https://github.com/facebookresearch/esm/blob/main/scripts/atlas/v2023_02/full/tarballs.t…
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Hello Ziqi, we have some issues about the data processing for new datasets.
1) We used ID in ensp_uniprot.txt to download native protein structures, but we discovered that over 600 native protein st…
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Add a feature to candi that allows the user to retrieve sequences pertaining to a given mutation.
Will need to add functions that retrieve relevant genome builds in mutational data.
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We are benchmarking folding methods on predicting structures of proteins containing unnatural amino acids. We saw that you mentioned 'prediction for unnatural amino acids is coming soon' on Github, so…
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Pdb uses PROMOTIF, we shoud use the same.
see https://www.rcsb.org/sequence/4ro1
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**Uberon term**
strand of hair UBERON:0001037 A filament, mostly protein, that grows from follicles found in the dermis[WP].
hair shaft UBERON:0002074 The main part of the hair which is composed of …
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As a result of the GO-CAM specs call today, we made the decision that cellular anatomical structures represent a location in GO. Gene products and complexes will be located in those anatomical structu…
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**Command that I ran:**
```
asap-ml build-dataset schnet --exp-file unknown_error.json \
--structures '*_complex.pdb' \
--ds-cache ~/dataset_cache_local.pkl \
--xtal-regex '(?
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From [ticket in other repo](https://github.com/xchem/fragalysis-frontend/issues/424)
The following request, directly from the example doesn't work.
```python
import os
import tempfile
impo…