Hi,
If, in your case, no possible asymmetric unit can contain A1-B2, then
you deposit A1-B1 (or I suppose A2-B2...) and indicate to the PDB (like
placing cards in the header cards) the operator to be used (and the
subunit it applies to) in order to generate the most likely biological
dimer. Normally the PDB can take care of that.
Fred.
Kayashree M wrote:
Respected Sir,
The space group is H3. if I generate the symmetry,
it appears to be a dimer of trimers stacked one above
the other with a rotation of 60 deg wrt each other, like
this - A1, A2, A3 (in one trimer) stacked upon
B1, B2, B3 (second trimer). So structure that is in the ASU
is with A1-B1 while PISA predicts A1-B2.
Thank you
With Reagrds
Kavya
-----CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> wrote: -----
To: CCP4BB@JISCMAIL.AC.UK
From: James Stroud
Sent by: CCP4 bulletin board
Date: 10/19/2011 10:41PM
Subject: Re: [ccp4bb] Biological assembly
On Oct 19, 2011, at 4:36 AM, Kayashree M wrote:
We have a structure which is a homodimer in the asymmetric unit.
PISA predicts most probable assembly as a dimer but this
dimeric assembly is different from what is solved (offcourse
we can generate the symmetry equivalent molecule and get that).
This last sentence is a bit vague. Can you take the just dimer
that PISA predicts, fit this dimer to the lattice (i.e. each
monomer sitting correctly in density but retaining the dimeric
relationship predicted by PISA), and then generate the complete
lattice using just this fitted dimer and crystallographic symmetries?
If so, that means that the PISA dimer is equivalent to the ASU you
can deposit the PISA dimer as the ASU.
James
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