Skip Navigation


Nucleic Acids Research Advance Access originally published online on May 5, 2009
Nucleic Acids Research 2009 37(Web Server issue):W235-W239; doi:10.1093/nar/gkp287
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (1466K) Freely available
Right arrow Screen PDF (261K) Freely available
Right arrowOA All Versions of this Article:
37/suppl_2/W235    most recent
gkp287v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by van Dijk, M.
Right arrow Articles by Bonvin, A. M. J. J.
PubMed
Right arrow PubMed Citation
Right arrow Articles by van Dijk, M.
Right arrow Articles by Bonvin, A. M. J. J.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W235-W239
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

3D-DART: a DNA structure modelling server

Marc van Dijk and Alexandre M. J. J. Bonvin*

Bijvoet Center for Biomolecular Research, Science Faculty, Utrecht University, The Netherlands

*To whom correspondence may be addressed. Tel: +31 30 2533859; Fax: +31 30 2537623; Email: a.m.j.j.bonvin{at}uu.nl

Received January 30, 2009. Revised April 14, 2009. Accepted April 14, 2009.

There is a growing interest in structural studies of DNA by both experimental and computational approaches. Often, 3D-structural models of DNA are required, for instance, to serve as templates for homology modeling, as starting structures for macro-molecular docking or as scaffold for NMR structure calculations. The conformational adaptability of DNA when binding to a protein is often an important factor and at the same time a limitation in such studies. As a response to the demand for 3D-structural models reflecting the intrinsic plasticity of DNA we present the 3D-DART server (3DNA-Driven DNA Analysis and Rebuilding Tool). The server provides an easy interface to a powerful collection of tools for the generation of DNA-structural models in custom conformations. The computational engine beyond the server makes use of the 3DNA software suite together with a collection of home-written python scripts. The server is freely available at http://haddock.chem.uu.nl/dna without any login requirement.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.