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Abstract
A WWW server is described for creating 3D models of canonical or bent DNA starting from sequence data. Predicted DNA trajectory is first computed based on a choice of di- and tri-nucleotide models (M.G. Munteanu et al., Trends Biochem. Sci. 23, 341-347, 1998); an atomic model is then constructed and optionally energy-minimized with constrained molecular dynamics. The data are presented as a standard PDB file, directly viewable on the user's PC using any molecule manipulation program. The model.it server is freely available at http://www.icgeb.trieste.it/dna/ kristian@icgeb.trieste.it; pongor@icgeb.trieste.it a series of help files is available at the above address.
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