Definitions
Bead ID:
Identifier used by the algorithm to generate the coarse-grained structure and define connectivity between beads.
Bead Name:
The label displayed in the Mol* viewer for visualization purposes.
Rules of creating custom beads
To define a bead that covers multiple residue types, create multiple entries manually and assign them the same Bead ID.
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For A, G, C, U: Add 4 separate beads (select scope A, G, C, U respectively) and give them all ID e.g.,
A2.
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For Purines/Pyrimidines: Add 2 beads with the same ID (e.g.,
A3).
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Defining a link for one bead (e.g.,
A2) will automatically apply to all other beads with the same ID.