Then I suspect the sequence is overriding the model.
My preferred approach.
Get a sequence alignment from somewhere and use CHAINSAW to edit the
model you want to use. That is documented! And it will edit both
monomers in turn I believe..
Then you will have a dimer with the appropriate sequence editing done
for you.
Now give that toMOLREP without any sequence. Now I am pretty sure it
will use your whole model.
It will determine the non-cryst tramslation and apply it automatically
to all copies I guess but if you have strong NCT then it usually more or
less relates allmolecules..
.
Pseudo centring - what do you mean by that?
Twinning - Aaagh
Eleanor
tommi kajander wrote:
yes i am, i haven't got a clue, it always seems to be doing somethig
other than i want it to..
to be honest the manual is prety obsolete and non-existent, would be
nice if the authors provided
more info on current vresion.
tommi
On 1.10.2009, at 11.10, Eleanor Dodson wrote:
How can that be! Are you also providing a sequence?
Eleanor
Tommi Kajander wrote:
Hi,
I have been using a dimer as a search model in MOLREP (there will be
several in AU),
for some reason the program tends to break the dimer into monomers
wihtout asking me..
how is this determined in the program... a more detailed manual
would be nice, also on the output
as the different contrasts and their meaning appear bit cryptic to
me. (i am beginning to get the hang of it
but its still bit fuzzy..)
Also if i am searching for number of say these dimers and there is a
speudo-translation vector
should it be used all the time? (i would assume not all the searched
unit are related necessarily by the
translational NCS) (to make it even merrier, there is both proper
speudo centering and "just" translational
NCS .. and you can only specify one vector... if we are lucky its
also twinned...
thanks for comments,
Tommi
Tommi Kajander, Ph.D.
Macromolecular X-ray Crystallography
Research Program in Structural Biology and Biophysics
Institute of Biotechnology
P.O. Box 65 (Street: Viikinkaari 1, 4th floor)
University of Helsinki
FIN-00014 Helsinki, Finland
Tel. +358-9-191 58903
Fax +358-9-191 59940
