Just to clarify:
1st cent)
Why limiting ourselves saying that we read models, or produce models, or do whatever with models? It is auto-destructive. We read, produce or treat STRUCTURES, and that is what a PDB contains, a chemical structure. And that is the term that I am proposing instead of UNIVERSE (which is confusing).
2nd cent)
Daniel's alternative of reading Hierarchies[1].Residues[1] is clearly less understandable that my proposal Structure.Proteins[1].Residues[1].Atoms[1].
My proposal, by the way, is Dina's 4 levels with more adequate chemical terms, imho. Substitute Proteins for Nucleic acids or whatever is adequate, of course.
Javi
2009/10/8 Dina Schneidman duhovka@gmail.com
> that is what it currently reads > > On Thu, Oct 8, 2009 at 8:11 PM, Daniel Russel drussel@gmail.com wrote: > > > > On Oct 8, 2009, at 7:03 PM, Ben Webb wrote: > > > >> On 10/08/2009 06:55 PM, Daniel Russel wrote: > >>> > >>> We need to clean up what happens when multiple molecules are loaded > from > >>> a PDB. > >> > >> Do you mean multiple chains in one model (potentially, but not > >> necessarily, separated by TER records), multiple models separated by > ENDMDL > >> records, or both? > > > > Within one PDB MODEL record. Not just multiple chains of protein but > > heterogens too. > > _______________________________________________ > > IMP-dev mailing list > > IMP-dev@salilab.org > > https://salilab.org/mailman/listinfo/imp-dev > > > _______________________________________________ > IMP-dev mailing list > IMP-dev@salilab.org > https://salilab.org/mailman/listinfo/imp-dev >