= Attendees =

   Conrad, Elaine, TomG, Greg, Eric, Scooter, TomF

= Agenda =
  * Demo by TomG of CRISPR, Ribosome and NPC structures as examples of complex assemblies (see [http://www.rbvi.ucsf.edu/chimera/data/hierarchy-aug2016/hierarchy.html Data hierarchy and groupings] slide
  * Discuss what entities are necessary and what their relationships are

= Discussion =
  * List of basic entities:
    - Assembly
    - Volume
    - Protein
    - Nucleic Acid
    - Chain
    - Domain
    - Helix
    - Sheet
    - Solvent
    - Ion
    - Metal
    - Crosslink (aka pseudo-bond)
    - H-bond
    - Missing segment

  * List of computed, predefined, or user defined entities/groups
    - Surface
    - Active Site
    - Axes
    - Centroid
    - Planes
    - Ellipsoids

  * Hierarchical relationships:
    - Assembly
      - Chain
        - Domain
        - Helix$
        - Strand$
        - Sheet$
        - Missing Segment
        - <Sequence>
        - *Any computed/predefined/user-defined item
      - Protein$
      - Nucleic Acid$
      - Ligand$
      - Ion/Metal$
      - Solvent$
      - Crosslinks
      - H-bonds
      - Volume
      - Sheet
      - Coarse Grained Model
      - Assembly
      - *Any computed/predefined/user-defined item
    - $ = ChimeraX-defined groups

= Action items =
  * Continue discussion at next CDM