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[Monomer library] As Ketcher Polymer Editor user I want to work with RNA monomers

Alena Guznischeva edited this page Feb 18, 2022 · 2 revisions
As I want so that
Ketcher polymer editor user to work with the monomer of RNA type in monomer library I can view, explore, and select proper monomers to create peptides on the canvas

1. Context

Glossary: Peptide Glossary

Monomers of RNA type in Monomer library will represent the basic nucleotides that are participating in RNA and DNA combining among with the modifications available for nucleobase, sugar, and phosphate.

3. Assumptions

ID Assumption
1 5 basic nucleotides would be the group of RNA monomers with the easiest access for users
2
3

4. Additional information (optional)

RasMol color scheme description for Nucleosides: http://www.pdg.cnb.uam.es/cursos/Barcelona2002/pages/Farmac/CMU_course/ProtG/ShapelyColors.html

UIPAC nomenclature for nucleotides:

IUPAC nucleotide code Base
A Adenine
C Cytosine
G Guanine
T (or U) Thymine (or Uracil)

8. Acceptance Criteria

# User Group GIVEN WHEN THEN
1 Ketcher peptide editor User Peptide editor mode of the Ketcher enabled viewing on the Ketcher peptide editor I immediately see the monomer library with RNA tab presented
AND
I can select the RNA tab
2 RNA tab of Monomer library is selected I see 4 sections of the RNA library: Nucleotide, Nucleobase, Sugar, and Phosphate
AND
I immediately see on the header of each section what element is selected right now
AND when hovering on the header of each section I see the tooltip with the name of the corresponding monomer type and the full name of currently selected monomer in this section
3 Peptide editor mode of the Ketcher enabled
AND
RNA tab of Monomer library selected
Nucleotide section is displayed I see the list of basic Nucleotides with UIPAC code presented immediately (A, C, G, T, U)
AND
I can hover or select each of them
4 Sugar section is displayed I see the list of Sugar elements with Ribose, Deoxyribose on the top
AND
other sugars sorted by the name with short name presented immediately on the screen for each one of them
5 Phosphate group section is displayed I see the list of Sugar elements with Phosphate on the top
AND
other phosphate groups sorted by the name with short name presented immediately on the screen for each one of them
6 RNA tab of Monomer library is selected
AND
any section is displayed
AND
hovering over the element
I see the hovering window with the information about the nucleotide element:
1) trivial name of the element
2) molecule structure picture representing the molecule with connection points specifically identified, enumerated, and presented and with a transcript of each connection end molecular formula (can be delayed)
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