Did you write the file as PDB or mmCIF when you saved it from ChimeraX? When I use Build Structure to join a NAG to an ASN, the resulting PDB file has the proper LINK/CONECT records.

--Eric

Eric Pettersen

UCSF Computer Graphics Lab

On Sep 24, 2024, at 9:51 AM, Kai Cai via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Dear colleagues,

I am trying to build a N-glycan into my model using 'bond' command with ChimeraX, by connecting the ND2 atom from an ASN residue to the C1 atom of the N-glycan (NAG). However, the manually built bond didn't show up when I opened the coordinates in Coot. Is there a way to overcome this issue? The bond length is 1.4 Å. Thanks in advance!

Cheers,
Kai

UT Southwestern
Medical Center
The future of medicine, today.
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