Published July 8, 2019 | Version 1.0.0
Dataset Open

HADDOCK file I/O benchmark

  • 1. Utrecht University

Description

The benchmark is composed of 1,000,000 structures in PDB format extracted from the results of applying HADDOCK to the cases of the Protein-Protein Docking Benchmark v5 (BM5), which is a well-accepted benchmark in the protein docking community.  Due to the nature of the BM5 benchmark, the PDB files are different in length as they represent different molecular structures. Files are placed in a single directory and named according to the BM5 they originated from, docking procedure used, docking stage and model number, example; 1BVN_ti5-it1_167.pdb and 1AK4_cm-it0_1601.pdb. The HADDOCK file I/O benchmark is related to our BioExcel project on high throughput modelling of interactomes, this task will generate a gargantuan number of files and will only be possible by taking advantage of exascale computing resources both for processing and I/O handling.

Files

Files (86.0 GB)

Name Size Download all
md5:e81b134c8ddd035985a63301e07ac7ed
21.5 GB Download
md5:689efdee5a1374f0f1ac1ef52beffe39
21.5 GB Download
md5:de9db417622dc43472da7ac88954d2ef
21.5 GB Download
md5:174c60b6b28205b21256326f6b580f95
21.5 GB Download

Additional details

Funding

European Commission
BioExcel-2 - BioExcel Centre of Excellence for ComputationalBiomolecular Research 823830