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Protein dna docking tutorial with haddock3 #681

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cabf100
intro to protein-DNA-basic
AnnaKravchenko Aug 6, 2024
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up to analysis. revised up to docking with Haddock3
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done, minus list of todos at the end
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5 changes: 5 additions & 0 deletions education/HADDOCK3/index.md
Original file line number Diff line number Diff line change
Expand Up @@ -25,3 +25,8 @@ _Note that HADDOCK3 is still in heavy development and as such the software is ev
This tutorial demonstrates the use of HADDOCK3 for predicting the structure of an antibody-antigen complex using information
about the hypervariable loops of the antibody and a loose definition of the epitope determined through NMR experiments.
As HADDOCK3 only exists as a command line version, this tutorial does require some basic Linux expertise.

* [**Haddock3 basic protein-DNA docking tutorial**](/education/HADDOCK3/HADDOCK3-protein-DNA-basic):
This tutorial demonstrates the use of Haddock3 for predicting the structure of a protein-DNA complex in which two protein units bind to the double-stranded DNA in a symmetrical manner (reference structure [3CRO](https://www.rcsb.org/structure/3CRO)).
In addition to provided ambiguous restraints used to drive the docking, symmetry restraints are also defined to enforce symmetrical binding to the protein.
This tutorial is using a local version of Haddock3, and therefore requires the use of a terminal and some basic command line expertise.