[phenixbb] A question about AutoBuild
Marcelo Carlos Sousa
Marcelo.Sousa at Colorado.EDU
Mon Jul 30 14:37:09 PDT 2007
We have solved (in part) a structure by Molecular Replacement. The
protein is a homodimer with 360 amino acids per chain (one dimmer per
asu). The model was pretty good for the last 220 amino acids or so
but appears to be wrong for the first 140 so I deleted them and
refined using phenix to an R free of ~ 0.38. As I was about to start
model building in O I thought I would give the phenix autobuild a try.
The resolution is 2.5 Å and the map shows buildable features for the
missing domain. I ran the autobuild wizard with RESOLVE building “in-
place” to extend the current model. However the program seemed unable
to add fragments of secondary structure (even as alanines) to the
model. The question is: is the building “in-place” restricted to
“growing” the current model from the ends?
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