  The moir\'e superstructure of graphene grown on metals can drive the assembly
of molecular architectures, as iron-phthalocyanine (FePc) molecules, allowing
for the production of artificial molecular configurations. A detailed analysis
of the Gr/Co interaction upon intercalation (including a modelling of the
resulting moir\'e pattern) is performed here by density functional theory,
which provides an accurate description of the template as a function of the
corrugation parameters. The theoretical results are a preliminary step to
describe the interaction process of the FePc molecules adsorption on the Gr/Co
system. Core level photoemission and absorption spectroscopies have been
employed to control the preferential adsorption regions of the FePc on the
graphene moir\'e superstructure and the interaction of the central Fe ion with
the underlying Co. Our results show that upon molecular adsorption the distance
of C atoms from the Co template mainly drives the strength of the
molecules-substrate interaction, thereby allowing for locally different
electronic properties within the corrugated interface.
