If the user request a structure for undefined nucleobase type (which can thus bear any type), the value of this variable is retrieved.
Returns map storing the reference nucleotide structures. It is up to the caller to ensure that the map has been already properly initialized.
This function tries to align base pair structures according to the nucleotide standard reference frame as defined by Olson et al. in "A Standard Reference Frame for the Description of Nucleic Acid Base-pair Geometry" (2001) and 3DNA papers. However, there may be differences between this implementation and aforementioned sources.
structure to be aligned
Aligns the base with a UNF nucleobase reference frame (computed based on atoms of a single base)
nucleobase type
reference structure (atoms of this structure will be modified)
if set to true, the atoms will be shifted to have their center roughly on the pseudodyad base-pair axis
Starts the process of loading the reference nucleotide atomistic structures
promise which resolves after the structures are loaded and reference data are computed
Loads structures, aligns them with desired reference frame, collects reference data and resolves with map of nucleotide structures.
Generated using TypeDoc
Class providing reference data/statistics for individiual nucleobase types