PPIRef
Authors/Creators
Description
PPIRef is a dataset of 3D structures of protein-protein interfaces. See the GitHub repository for more details.
File description
ppi_6A.zip stores the PPIRef dataset: .pdb files with all 6A-distance interfaces from PDB as of Jan 2024.
ppi_6A_stats.zip stores the statistics about the dataset. This includes the indexes for fast search with MMseqs2 and iDist, as well as a .csv file with main statistics for all interfaces.
ppi_10A.zip: .pdb files with all 10A-distance interfaces from PDB downloaded in June 2024.
pdb_redo_ppi_10A.zip: .pdb files with all 10A-distance interfaces from PDB-REDO downloaded in June 2024.
How to use
It is recommended to download and extract the files in the PPIRef/ppiref/data/ppiref directory. This can be done automatically via the ppiref package. For example, to download and extract the ppi_6A.zip archive run:from ppiref.utils.misc import download_from_zenododownload_from_zenodo('ppi_6A.zip')
Files
ppi_6A.zip
Files
(32.7 GB)
| Name | Size | Download all |
|---|---|---|
|
md5:05f2605d4d7ab326e28b61000c2559ca
|
9.2 GB | Preview Download |
|
md5:eca65e5b07c27cc7d657dd7876fe0c69
|
47.8 MB | Preview Download |
|
md5:a41aeb496cdc58c0e89fab87bfd5f34b
|
13.3 GB | Preview Download |
|
md5:00442fc07e10541a5b17aa1baf7d0841
|
70.2 MB | Preview Download |
|
md5:198b99214247843b5c29c1b5c9fede04
|
6.9 GB | Preview Download |
|
md5:4152f220384ded2f1a67989c39ea77ef
|
3.1 GB | Preview Download |
Additional details
Related works
- Is published in
- Dataset: arXiv:2310.18515 (arXiv)
Software
- Repository URL
- https://github.com/anton-bushuiev/PPIRef
- Programming language
- Python