Hi Shawn, I could not reproduce this problem. I tried a simple test of two different structures each with protein + double-stranded DNA and all three chains are shown in the morph. My test: open 4fnc open 4jgc mm #2 to #1 morph #1,2 These structures are almost the same, so the morph isn't particularly exciting, but I was just trying to find any simple test case since you didn't give one in your message. Are you sure that the NA isn't in the morph? Did you try displaying it explicitly, in case for some reason it just wasn't displayed? We can't say anything else without your specific data, or really any set of structures that reproduces the problem that you report. Tested in production release UCSF ChimeraX version: 1.7.1 (2024-01-23) ...as well as recent daily build UCSF ChimeraX version: 1.8.dev202404022254 (2024-04-02) I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco

On Apr 8, 2024, at 8:54 PM, Shawn Rumrill via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Hello All,

I am trying to create an animation morphing between two states of a protein/nucleic acid complex (one binary, one with an incoming nucleotide). Excluding the nucleotide, the corresponding chain IDs between structures are the same and the sequences are the same.

In both ChimeraX and PyMol, I am able to create the morphing animation however, only the protein appears (nucleic acid just does not appear in the animation). Am I missing something obvious?

I appreciate any insights.

Thanks,

Shawn R