Introduction
Dolbico, the Database Of Local Biomolecular Conformers, stores DNA structural data including the information about DNA local spatial arrangement. The main aim of Dolbico is the exploration of DNA structure at a local level. The analysis of local DNA structure is based on our classification system [1] that uses 9 torsional angles (7 backbone angles and two glycosidic torsions) to categorizes dinucleotides into several distinct conformational families. The implemented classification workflow [2] is able not only to classify dinucleotides into already existing classes, but is also able to discover new classes in new solved DNA structures. More details about the classification system are vailable in Help pages.
Authors
MSc. Petr Čech, Ph.D.petr.cech@vscht.cz
University of Chemistry and Technology Prague, main developer |
Prof. Daniel Svozil, Ph.D.daniel.svozil@vscht.cz
University of Chemistry and Technology Prague, |
Assoc. Prof. Filip Lankaš, Ph.D.filip.lankas@vscht.cz
University of Chemistry and Technology Prague, |
References
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Svozil D., Kalina J., Omelka M., Schneider B.: DNA conformations and their sequence preferences. Nucleic Acids Research, 2008, 36(11):3690–3706.
DOI: 10.1093/nar/gkn260
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Čech P., Kukal J., Černý J., Schneider B., Svozil D.: Automatic workflow for the classification of local DNA conformations. BMC Bioinformatics, 2013, 14(1).
DOI: 10.1186/1471-2105-14-205
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Schneider B., Černý J., Svozil D., Čech P., Gelly J.-Ch., de Brevern A. G.: Bioinformatic analysis of the protein/DNA interface. Nucleic Acids Research, 2013.
DOI: 10.1093/nar/gkt1273
