. 2005 Jul 1;33(Web Server issue):W130-2.
doi: 10.1093/nar/gki427.
DIAL: a web-based server for the automatic identification of structural domains in proteins
Affiliations
- PMID: 15980441
- PMCID: PMC1160188
- DOI: 10.1093/nar/gki427
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DIAL: a web-based server for the automatic identification of structural domains in proteins
Nucleic Acids Res.
.
Abstract
DIAL is a web server for the automatic identification of structural domains given the 3D coordinates of a protein. Delineation of the structural domains and their exact boundaries are the starting points for the better realization of distantly related members of the domain families, for the rational design of the experiments and for clearer understanding of the biological function. The current server can examine crystallographic multiple chains and provide structural domain solutions that can also describe domain swapping events. The server can be accessed from http://www.ncbs.res.in/~faculty/mini/DIAL/home.html. The Supplementary data can be accessed from http://www.ncbs.res.in/~faculty/mini/DIAL/supplement.html.
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References
-
- Ilsley J.L., Sudol M., Winder S.J. The WW domain: linking cell signalling to the membrane cytoskeleton. Cell. Signal. 2002;14:183–189. - PubMed
-
- Chamnongpol S., Li X. SH3 domain protein-binding arrays. Methods Mol. Biol. 2004;264:183–189. - PubMed
-
- Heger A., Holm L. Exhaustive enumeration of protein domain families. J. Mol. Biol. 2003;328:749–767. - PubMed
-
- Russell R.B. Domain insertion. Protein Eng. 1994;7:1407–1410. - PubMed
-
- Finn R.D., Marshall M., Bateman A. iPfam: visualization of protein–protein interactions in PDB at domain and amino acid resolutions. Bioinformatics. 2005;21:410–412. - PubMed
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