Protein Interactions and Docking Group

Tools and Databases

CCharPPI

Computational Characterisation of Protein-Protein Interactions.

https://life.bsc.es/pid/ccharppi
OPRA Server

OPRA (Optimal Protein-RNA Area) is useful for identifying potential RNA-binding sites on proteins and can help to model protein-RNA interactions of biological and therapeutic interest.

https://life.bsc.es/pid/opra
Protein-RNA Benchmark

The Protein-RNA benchmark v1.0 is composed of 106 cases, with 5 unbound-unbound, 4 unbound-pseudo-unbound, 62 unbound-bound, 5 unbound-model, 8 model-unbound, 19 model-bound cases and 3 model-model.

https://life.bsc.es/pid/protein-rna-benchmark/
pyDock

pyDock is a fast protocol which uses electrostatics and desolvation energy to score docking poses generated with FFT-based algorithms.

https://life.bsc.es/pid/pydock/
pyDockEneRes

pyDock Energy per Residue

https://life.bsc.es/pid/pydockeneres
pyDockRescoring

PyDockRescoring is a web server for rescoring of pyDockWEB server jobs.

https://life.bsc.es/pid/pydockrescoring
pyDockSAXS

pyDockSAXS server is a web server for rigid-body protein-protein docking that combines computational and experimental information.

https://life.bsc.es/pid/pydocksaxs
pyDockWEB

pyDockWEB is a web server for the structural prediction of protein-protein interactions.

https://life.bsc.es/pid/pydockweb
SKEMPI2

The new version of the SKEMPI database, with more than 7000 mutation data. The SKEMPI2 database contains data on the changes in thermodynamic parameters and kinetic rate constants upon mutation, for protein-protein interactions for which a structure of the complex has been solved and is available in the protein databank.

https://life.bsc.es/pid/skempi2