Hi IMP users,
I am currently working with no PDB structure, but with a custom artifact
proteins made of concatenated beads (IMP spheres with volume). I would like
to apply and integrate different type of data on it (cross linking - mass
spectrometry, yeast two-hybrid, and cryoEM). I would like to ask you if
should I work with hierarchies (IMP.atom.Hierarchy
<https://integrativemodeling.org/2.12.0/doc/ref/classIMP_1_1atom_1_1Hierarch…>or
IMP.core.Hierarchy) in this case, customizing my hole complex of 8 subunits
with different molecules and atoms. If it is the case, how can I work on it
in the way that I can parse the full molecule like:
"""
for molecule in root.get_children():
for atom in molecule.get_children():
do sth
"""
I have been trying on it, but no way to track the full hierarchy. I would
appreciate some help, or just an example to how work on it. Or may be there
is no sense to. For instance, the IMP.core.ConnectivityRestraint example
<https://integrativemodeling.org/2.12.0/doc/ref/classIMP_1_1core_1_1Connecti…>
makes hierarchies but is not parsing the full molecule, only connecting all
the beads. I would like to force it to only a pair of fragments to be
connected in a certain distance.
Some advice for it? Should I work on it if needing to integrate cryoEM data
with IMP.pmi?
Thanks in advance!
Altair
