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Publication for PiSITE
Bioinformatics and Moonlighting Proteins
[…] There are different algorithms and programs for structure prediction and modeling that can yield hints on functional sites in protein sequences (Pisite, Phyre, I-tasser, SiteEngine…). We have applied two of them: Pisite (Higurashi et al., ) and Phyre (Kelley and Sternberg, ) to the moonlighting proteins of the MultitaskProtDB database. In the […]
Protein protein Interaction Network Prediction by Using Rigid Body Docking Tools: Application to Bacterial Chemotaxis
[…] oteins is in agreement with our findings given in (Fig. ). It should also be noted that both docking tools predict CheY undergoes dimerization. Moreover, sequence homology based interlog search using PiSite  also suggests that dimerization of CheY is likely. […]
Drug Like Protein–Protein Interaction Modulators: Challenges and Opportunities for Drug Discovery and Chemical Biology
[…] tein–Protein Interaction (MIPS), the host-pathogen interaction database (HPIDB), IntAct, BioGRID, STRING. Structural information can be found at the Protein Data Bank (PDB) and for instance PISite collects interface data from the PDB. Structures of domain-domain interactions are available from 3did, and iPfam, while a spatial classification of 3D protein domain interaction database […]
Specialized Dynamical Properties of Promiscuous Residues Revealed by Simulated Conformational Ensembles
[…] rotein where both backbone and side chains are included, it is still faster than MD simulations.The interaction data on each protein of our SFull data set were derived from a structural PPI database, PiSite, where partners from all the PDB complexes involving homologues within a high (>90%) sequence identity family are mapped onto a family representative. Structural PPI databases generally contain […]
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