Your message is a bit confusing... Which kind of validation are you
referring to? Do you want to check the geometrical quality of the
backbone and side-chain rotamers, or do you want to evaluate how likely
it is that the fold proposed by homology actually represents the fold of
Department of Protein Evolution
Max Planck Institute for Developmental Biology
On 02.03.2018 13:09, Tristan Croll wrote:
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
Hope this helps,
On 2018-03-02 11:44, Careina Edgooms wrote:
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