;
> *Von:* CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] *Im Auftrag von
> *Kevin Jude
> *Gesendet:* Freitag, 22. März 2019 04:11
> *An:* CCP4BB@JISCMAIL.AC.UK
> *Betreff:* [EXTERNAL] Re: [ccp4bb] crystal contacts and biologically
> relevant contacts
>
>
>
> Hi Alex,
@JISCMAIL.AC.UK] Im Auftrag von Kevin
Jude
Gesendet: Freitag, 22. März 2019 04:11
An: CCP4BB@JISCMAIL.AC.UK
Betreff: [EXTERNAL] Re: [ccp4bb] crystal contacts and biologically relevant
contacts
Hi Alex,
Yes this is acceptable - symmetry-related proteins are identical and
interchangeable. It can
Hi Alex,
Yes this is acceptable - symmetry-related proteins are identical and
interchangeable. It can be helpful to use the PISA program (a plugin for
Coot or as a webserver
http://www.ebi.ac.uk/msd-srv/prot_int/cgi-bin/piserver) to identify which
symmetry-related proteins are forming the
Dear Colleagues,
Recently I solved one Ab-Ag complex structure. It was indexed as p212121 or
p21212 space group and solved the structure with one Fab and one Ag in the
cell unit. The contact interface is not the one I expected (elbow region
contacts with Ag). Using symexp I got several symmetry
Hi,
A few weeks ago, I have already cited renin as such an example. With two
slightly differerent molecules in the asu, certain inhibitors bind only to
one of them and the other renin molecule is empty.
Look at 2G24 for example in the PDB.
Molecule A is loaded, while B is empty. The difference in
Dear all,
I am wondering if there are publications, where it is shown
that a ligand/substrate was not able to bind in one crystal
form of a protein, but was found in another crystal form.
In other words:
is there a case where the crystal packing interactions are
proofed to be responsible for
Dear All,
Apologies for a non-CCP4question. I have a structure of a dimeric molecule,
where the interfaces between monomers is held by a couple of tyrosine
residues (per monomer) juxtaposed with each other. The molecule exists as a
dimer in solution. Are there ways/programs to show that the
amit sharma wrote:
Apologies for a non-CCP4question.
Aggh! Stop! Stop it! Stop apologising for using CCP4BB in the way
it is supposed to be used!
And not only that, this is not a non-CCP4 question.
I have a structure of a dimeric molecule, where the interfaces between
monomers is
Dear Amit
As Paul suggests, you can get some idea if the interaction is consistent
with biologically relevant protein-protein interfaces through looking at the
the size of the interface and the nature of the contacts in the interface.
There is substantial literature on this topic, see
Dear Amit,
You might want to take a look at NOXclass webserver:
http://noxclass.bioinf.mpi-inf.mpg.de/help.php
Relevant paper is available at:
http://www.biomedcentral.com/1471-2105/7/27
Goold Luck,
Partha Sampathkumar
NYSGXRC
On Mon, Feb 22, 2010 at 6:49 AM, amit sharma 3112a...@gmail.com
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