Add wheat PDB file references to Blender and ChimeraX visualization scripts for pMHC demonstration clips. Review scripts for technical optimization and content alignment with Tolera's therapeutic narrative.

This session aimed to add wheat PDB file references into the Blender and ChimeraX visualization scripts used for pMHC demonstration clips, and to review those scripts for technical optimization and alignment with Tolera's therapeutic narrative.

The agent worked with a set of allergen/protein structure files (including wheat_singlechain.pdb and soy_singlechain.pdb) intended for use in pMHC visualization scenes. During review, a genuine 0.56 Å near-superposition clash in the wheat graft was identified (initially mischaracterized as "slight"), and it was corrected with a minimal 2.0 Å rigid nudge of the peptide along the direction that relieved the worst contacts. The corrected wheat_singlechain.pdb was re-saved as version 2, with the header updated to record the nudge, and the peptide confirmed to remain seated in the groove (5.6 Å from groove center vs. soy's 4.5 Å). Because the visualization script (version 5) references the file by name, it automatically picks up the corrected structure without requiring script edits.

The primary deliverable is the corrected [wheat_singlechain.pdb](artifact ec00f6c2-c70d-4dcf-aadd-7f53b9ce098c), version 2, now showing 0 severe clashes and a minimum contact distance of 1.56 Å, matching soy_singlechain.pdb. Supporting artifacts from the session include dairy_tetramer.pdb, streptavidin_core.pdb, soy_singlechain.pdb, the tcell_threefate_scene_v3_cycles.py Blender script, and the pmhc_delivery_formats.cxc ChimeraX script.