Broken residues and missing atoms in results

[patochinestrad]

Hi everyone,

I was able to run my docking with no issue. However, there are missing atoms and broken residues in my results.

The residue selected on the image is supposed to be a Tyrosine. It happens on several residues at the same time, for example, the one above the selected Tyr is supposed to be a Leucine.
When I open up the .pdb file on notepad, the residue is clearly missing atoms there too

ATOM 48 N TYR A 8 -12.622 14.397 16.883 0.00 0.00 N
ATOM 49 CA TYR A 8 -13.292 13.133 16.599 0.00 0.00 C
ATOM 50 C TYR A 8 -14.789 13.283 16.848 0.00 0.00 C
ATOM 51 O TYR A 8 -15.555 12.364 16.566 0.00 0.00 O
ATOM 52 CB TYR A 8 -12.699 11.987 17.425 0.00 0.00 C
ATOM 53 CG TYR A 8 -9.552 11.299 16.722 0.00 0.00 C
ATOM 54 H TYR A 8 -12.809 14.863 17.745 0.00 0.00 H

Any help is greatly appreciated!