Dear All,
Thanks to everybody who answered my previous question about heavy atoms! I got it now. I have some more questions now. 1) I built a loop in Coot, right now it is a separate molecule. I also know that it is possible to merge molecules, but if I do so, I’ll get my loop connected to my structure as a separate chain. My question is how can I connect my loop to my structure so the bonds would be built? I made sure that the distances between C-alphas on the borders are correct, but I do not know how to create a bond. 2) Coot allows me to draw the backbone only around the calculated skeleton. If in some parts of the molecule the density is so poor that the skeleton is not built at any cutoff, does it mean that there is no point in trying to build anything there? It seems to me that I still can recognize some of the residues in this poor density, but is it appropriate to build them having this poor density? If it is worth trying how can I build beyond the skeleton position? Thank you a lot! Natalia
