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Classifies local conformations of DNA molecules beyond their traditional sorting to A, B and Z DNA forms. DNATCO provides an interface to robust algorithms assigning conformation classes called ntC to dinucleotides extracted from DNA-containing structures uploaded in protein data bank (PDB) format. The assigned dinucleotide ntC classes are further grouped into DNA structural alphabet ntA, to the best of our knowledge the first DNA structural alphabet. The results are presented at two levels: in the form of user friendly visualization and analysis of the assignment, and in the form of a downloadable, more detailed table for further analysis offline. The website is free and open to all users without login requirement.

Dolbico / Database Of Local Biomolecular Conformers

Stores DNA structural data including the information about DNA local spatial arrangement. The main aim of Dolbico (formely DOLCE) is the exploration of DNA structure at a local level. The analysis of local DNA structure is based on a classification system that uses 9 torsional angles (7 backbone angles and two glycosidic torsions) to categorizes dinucleotides into several distinct conformational families. The implemented classification workflow is able not only to classify dinucleotides into already existing classes, but is also able to discover new classes in new solved DNA structures. In Dolbico, two following types of results can be exported: (i) details about structures (e.g., PDB ID, structure title, experimental metadata) containing structural units complying with a given query and (ii) details about found structural units. Results are exported as comma-separated values (CSV) files which enables their further analysis in specialized statistical software.


Provides stress-induced DNA duplex destabilization (SIDD) profiles of microbial genomes. SIDDBASE is a database that gives users an overview of the SIDD sites in their selected genome, and their positions relative to the annotated genes. This information facilitates the identification of regulatory elements, such as promoter-containing regions, in the genomic sequence. In addition, the original SIDD profiles (raw data and graphs) can be visualized and made available for downloading.