How do I get the GDT_TS for a model

Question

[Grombrindal]

Hi everyone,

I'm trying to get the GDT score of some protein models I've made, but I haven't been able to find a working program to calculate it anywhere.

I've tried using the GDT_TS function of TM-score and the Pymol plugin psico, but both programs are not functioning as intended.

one problem is that the PDB files are missing the N-terminal, thus TM-score does not properly align the two structures.

If anyone knows a program or code that aligns two structures and returns the GDT score, that would be brilliant!

Ben

Answer 1

[db42]

Have you tried Zhanglab http://zhanglab.ccmb.med.umich.edu/TM-score/