Deformation of nucleotide component and S-group structures after moving abbreviation and expanding #7366

Description:
When a structure is marked as a nucleotide component or S-group, and the abbreviation is moved to a new location in the contracted state, expanding the structure afterward results in a distorted layout. Bonds and atoms are displaced, and the overall geometry no longer reflects the original shape.
This behavior affects both macromolecule components (Base, Sugar, Phosphate) and generic S-groups.

Steps to Reproduce

1. Open structure 3-benzene-rings.zip
2. Collapse it into contracted form (abbreviation).
3. Move the abbreviation to a new position on the canvas.
4. Expand the structure again.
5. Observe the resulting layout.
6. Repeat the same steps with a generic S-group.

Actual behavior
The structure is expanded with distorted layout — bond angles and atom positions are shifted.

Expected behavior
Expanded structures should retain their original geometry regardless of abbreviation repositioning.

Screenshots
Nucleotide components:

S-groups:

Desktop:

• OS: Windows 11
• Browser Chrome
  Version 137.0.7151.104 (Official Build) (64-bit)

Ketcher version
[Version 3.6.0-rc.1]
Indigo version
[Version 1.34.0-rc.1]

This bug was found while testing: #7164