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You can no longer load structures hosted by the RCSB by providing their PDB ID. For example, you cannot load the structure [6XDG](https://www.rcsb.org/structure/6XDG) into the [NGL web application](ht…
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**Describe the bug**
Fpocket fail to parse atom_site section of 2po6 rcsb cif file.
**To Reproduce**
Steps to reproduce the behavior:
1. Go dowload cif file of ['2PO6'](https://www.rcsb.org/stru…
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In trying to run the EVcouplings pipeline, I couldn't download the MMTF files needed. Then I found the following message from RCSB:
"As of July 2, 2024, RCSB PDB will no longer serve PDB data in th…
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LYS_PDB_Search.py line93: url = "http://www.rcsb.org/pdb/rest/getBlastPDB1?sequence=%s&eCutOff=1e-6&matrix=BLOSUM62" % (gene_sequence)
the getBlastPBD, Legacy API Shutdown, how to update with th…
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Pdb uses PROMOTIF, we shoud use the same.
see https://www.rcsb.org/sequence/4ro1
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Running our protein-prep CLI on a supported target but using a PDB structure file directly from RCSB results in a failure see the following example:
```bash
wget https://files.rcsb.org/download/5SQ…
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Dear carlos,
I've seen the question you proposed in the fr3d repository. Recently I tried and analysed the code on how to convert cif file to graph via fr3d. But I found the method you'v implemente…
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### Elasticsearch Version
8.9.1
### Installed Plugins
_No response_
### Java Version
20.0.2
### OS Version
5.15.0-83-generic elastic/elasticsearch#92-Ubuntu SMP Mon Aug 14 09:30:42 UTC 2023 x86…
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Add a property `.biostructureDataProvider` for the name of the custom data provider function.
Add a property `.biostructureIdColumnName` to follow for the current row of the data frame linked to the …
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The RCSB PDB provides all files also in gzipped format. Therefore, to improve download times in `database.rcsb.fetch()`, one could optionally download the gzipped files and and unzip the HTTP response…