If you do not have coordinates, what do you have then? A sequence alignment? In
that case you can look at the %identity and %homology to see how well the known
structure fits the unknown structure.
If you do have coordinates in some other format generated by some modeling
software, you have to convert these coordinates into pdb format. Most modeling
program do have a “save as” or “export” option to generate a file in pdb
format. If that fails, there are also all kind of format converting programs,
but then you need to tell us the format you have right now.
Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Careina
Gesendet: Freitag, 2. März 2018 12:44
Betreff: [EXTERNAL] [ccp4bb] validating a homlology model
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