Error: Radius array is <= 0 for the residue: ILE ,atom: CD

PRODIGY
#1

I got this error message when submitting a PDB:

Running Prodigy for structure md_0_1_noPBC
ERROR:
[!] Error when running freesasa:
[!] Error: Radius array is <= 0 for the residue: ILE ,atom: CD

It seems that someone else has similar error previously.

#2

The proper atom name should be rather CD1 instead of CD for ILE.

#3

Thank you. I have changed the CD to CD1 for ILE.

I also have OT1 and OT2 atoms at the C termini, which causes the same problem Error: Radius array is <= 0 for the residue. How should I modify them?

#4

Standard PBD naming (freesasa relies on that and is not our software). I.e. O and OXT

#5

Thank you! It works now!