Thanks for the reminder that this needs to be documented.
On 30/01/12 16:06, Phil Evans wrote:
? eg if "Number" = 4, then there might be 2 picked residues on either end of
the loop to assume are more-or-less correct (even if not fixed)?
Yes... not fixed. It is a flag to the loop fitting algorithm: the loop
that I am trying to fit includes a residue at more or less in this
position. Find loops that have a residue about here. Indeed, I know the
positions of 2 sets of 3 residues (Number = 6) either side of the
missing residues.
On 30 Jan 2012, at 16:03, Judit Debreczeni wrote:
On 30 January 2012 14:47, Phil Evans<[email protected]> wrote:
Can someone explain Extensions->Modelling->DB Loop or point to documentation (I've tried
Google)? What are "Number of residues for basis"?
Phil
Assume we have a missing loop that we would like to get built. The
conformation of the newly built loop candidates will depend on the
residues we have already modeled on both sides of the gap. My
understanding is that residues picked for basis (i.e. residues already
modeled) will be included in the search and used as starting points
for the new loop (and not just treated as "correct").
J.
