No bonds beween atoms...?

[spyda90]

Hi,

Thank you for developing NeuralPlexer. We ran our first attempts on a very challenging protein and we obtained promising results, most of all very different from the (useless) ones obtained with our tools.

However, the ligand protein complexes we obtained have a "normal" protein for some amino acids streches while in other ones many bonds are missing (for example, a Leucine residue is represented with all the atoms (putatively at the right distances) but no bonds are there). The longest stretch where this happens is about 50aa.

In order to proceed with other studies (e.g. MDs) we'd like to solve this issue. What can be the reason why is this happening?

Thank you in advance.

Francesco