Classification and Exploration of 3D Protein Domain Interactions Using Kbdock.

Date publication

janvier 2016

Journal

Methods in molecular biology (Clifton, N.J.)

Auteurs

Membres identifiés du Cancéropôle Est :
Dr DEVIGNES Marie-Dominique

Tous les auteurs :
Ghoorah AW, Devignes MD, Smaïl-Tabbone M, Ritchie DW

Lien Pubmed

https://www.ncbi.nlm.nih.gov/pubmed/27115629

Résumé

Comparing and classifying protein domain interactions according to their three-dimensional (3D) structures can help to understand protein structure-function and evolutionary relationships. Additionally, structural knowledge of existing domain-domain interactions can provide a useful way to find structural templates with which to model the 3D structures of unsolved protein complexes. Here we present a straightforward guide to using the "Kbdock" protein domain structure database and its associated web site for exploring and comparing protein domain-domain interactions (DDIs) and domain-peptide interactions (DPIs) at the Pfam domain family level. We also briefly explain how the Kbdock web site works, and we provide some notes and suggestions which should help to avoid some common pitfalls when working with 3D protein domain structures.

Référence

Methods Mol. Biol.. 2016 ;1415:91-105