Reply To: Using rosetta 3 to make a fragment library and then use it to model loop of a protein structure

[Anonymous]

Hi,

I hope we get the new fragment picker in Rosetta 3.2 and then your problem will be very easy to solve. Yes, you will be able to pick any fragment size you want. The file format you mentioned will become obsolete as probably no one remembers what “0.947 12.265 16.922 3 0.000 P 1 F 1” actually means. But I would guess it is:
– fragment sequence score
– fragment SS score
– total weighted score of a fragment
– P 1 means the first position within a fragment
– F 1 should be the first fragment
But the last two fields look strange in your case (it is only P1 F1, I would expect continuous numbering)

Anyway, you may disregard anything after Phi, Psi, Omega – Rosetta doesn’t read it in.

Dominik