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Hi Careina, This is a little confusing. A homology model *is* a set of coordinates (usually provided as a PDB file by most servers/packages I know of). The MolProbity site at http://molprobity.biochem.duke.edu/ allows you to upload your own PDB file, and in my experience is quite forgiving regarding format. Hope this helps, Tristan On 2018-03-02 11:44, Careina Edgooms wrote: > Dear all > > What programs are best used for validate homology models? I know of > molprobity but if there are no coordinates I cannot use it. Is there a > way to use such programs with homology models? > > Also I wish to use pdbepisa for to charaterise dimer interface but > again for homology model this cannot be done as there is no PDB model. > Does anybody know way to use PISA software on my own model that is not > deposited in PDB? > > Thank you in advance > Careina