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HADDOCK2.4 basic protein-protein docking tutorial. This tutorial consists of the following sections: Introduction. Setup. HADDOCK general concepts. Inspecting and preparing E2A for docking. Inspecting and preparing HPR for docking. Adding a phosphate group. Setting up the docking run.
Overview: This tutorial will demonstrate the use of HADDOCK for predicting the structure of a protein-protein complex from NMR chemical shift perturbation (CSP) data. Namely, you will dock two E. coli proteins involved in glucose transport: the glucose-specific enzyme IIA (E2A) and the histidine-containing phosphocarrier protein (HPr).
A step by step description of the basic protein-protein docking example (E2A-HPR) can be found here. Refer also to the Bonvin lab website that contains several HADDOCK-related tutorials and material.
8 Ιουλ 2021 · HADDOCK2.4 web server (https://bianca.science.uu.nl/haddock2.4/) [1] is used for protein-protein docking and their modeling. Not only proteins, but it can also process peptides, small molecules, and nucleic acids. In this article, we are going to perform protein-protein docking.
HADDOCK (High Ambiguity Driven protein-protein DOCKing) is an information-driven flexible docking approach for the modeling of biomolecular complexes. HADDOCK distinguishes itself from ab-initio docking methods in the fact that it encodes information from identified or predicted protein interfaces in ambiguous interaction restraints (AIRs) to ...
21 Ιαν 2003 · Here, we present an approach called HADDOCK (High Ambiguity Driven protein−protein Docking) that makes use of biochemical and/or biophysical interaction data such as chemical shift perturbation data resulting from NMR titration experiments or mutagenesis data.
HADDOCK, standing for High Ambiguity Driven protein-protein DOCKing, is a widely used computational tool for the integrative modeling of biomolecular interactions.
