:: which indicates the 6 molecules are far away from each other.
Those are just the symmetry operators for space group P321. It tells you
nothing about how far apart the molecules are, although the cell dimensions do
in fact impose some constraints.
However look at REMARK 350 in the PDB format file, which describes the
orthogonal space operator to (probably) generate what you had in mind.
Phil Jeffrey
Princeton
________________________________
From: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Smith Lee
<00000459ef8548d5-dmarc-requ...@jiscmail.ac.uk>
Sent: Friday, September 25, 2020 9:35 AM
To: CCP4BB@JISCMAIL.AC.UK <CCP4BB@JISCMAIL.AC.UK>
Subject: [ccp4bb] on space group P 3 2 1
Dear All,
For pdb ID 1g4a, it is of space group P 3 2 1. In the paper for this pdb
(Crystal Structures of the HslVU Peptidase–ATPase Complex Reveal an
ATP-Dependent Proteolysis Mechanism), it has been configured to compact hexamer
from the pdb 1g4a, with the pdb 1g4a can be regarded from a dimer.
For the sapce group P 3 2 1,
the listing of symmetry operators was as following,
X, Y, Z
-Y, X -Y, Z
-X +Y, -X, Z
Y, X, -Z
X -Y, -Y, -Z
-X, -X +Y, -Z
which indicates the 6 molecules are far away from each other.
Then by which method, we can get the pdb for the compact hexamer as shown in
the figure 3 in the paper, from the pdb 1g4a?
I am looking forward to getting your advice.
Smith
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