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Nucleic Acids Research Advance Access originally published online on October 25, 2008
Nucleic Acids Research 2009 37(Database issue):D300-D304; doi:10.1093/nar/gkn690
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Nucleic Acids Research, 2009, Vol. 37, Database issue D300-D304
© 2008 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.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

3did Update: domain–domain and peptide-mediated interactions of known 3D structure

Amelie Stein1, Alejandro Panjkovich1 and Patrick Aloy1,2,*

1Institute for Research in Biomedicine (IRB) and Barcelona Supercomputing Center (BSC). c/ Baldiri Reixac 10-12, 08028 Barcelona, Spain and 2Institució Catalana de Recerca i Estudis Avançats (ICREA) Pg. Lluís Companys 23, 08010 Barcelona, Spain

*To whom correspondence should be addressed. Tel: +34 9340 39690; Fax: +34 9340 39954; Email: patrick.aloy{at}irbbarcelona.org

Received September 15, 2008. Accepted September 24, 2008.

The database of 3D interacting domains (3did) is a collection of protein interactions for which high-resolution 3D structures are known. 3did exploits structural information to provide the crucial molecular details necessary for understanding how protein interactions occur. Besides interactions between globular domains, the new release of 3did also contains a hand-curated set of transient peptide-mediated interactions. The interactions are grouped in Interaction Types, based on the mode of binding, and the different binding interfaces used in each type are also identified and catalogued. A web-based tool to query 3did is available at http://3did.irbbarcelona.org.


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