On Wednesday, 31 August 2011, Jan Dohnalek wrote:
> Wasn't the original question directed to our (growing) feeling that many
> times PISA says No obvious oligomerization pattern but we already have
> evidence of dimer formation etc..
> This should happen "occasionally" as the approach implied in th
Wasn't the original question directed to our (growing) feeling that many
times PISA says No obvious oligomerization pattern but we already have
evidence of dimer formation etc..
This should happen "occasionally" as the approach implied in the
calculations is statistical in a sense. We should not be
http://www.ebi.ac.uk/msd-srv/prot_int/pi_ilist_css.html
so it depends on how many 'stable assemblies' pisa can find i suppose.
more interfaces and especially if stable enough will make your
fraction go down. i would have been more surprised or worried if that
conservative mutation showed radically
I was playing around with PDBe PISA and came across the following:
For pdb entry 1OYA. The most promising interface has an area bury of around
720A^2 and DeltaG of -10.6Kcal/mol. sym_op(y,x,-z+1) and CSS of 0.039!
Assembly analysis says it has no strong indications that point to stable
quatern
On Aug 31, 2011, at 4:00 PM, Yuri Pompeu wrote:
After i get my output file from baverage containing the average b-
factor and rms by residues,
How can I calculate and display the average (and or mean) B-factors?
Is there a way of calculating it by protein, ligands and solvent
separately?
Ch
Dear Crystallographers,
once again I am filled with graditude to this list--there were many
helpful responses and even some geek humor. I have decided to go with
a dual-boot windows7/linux, which seems easy enough. All the best, and
thanks everyone for your quick and helpful advice.
Jacob Keller
Dear Flip,
I think with respect to the Formulatrix database, it would be useful to
have the date of entry into the database for each screen input. I agree
that there are discrepancies in the database, but they can generally be
traced to a change from one catalog to the next. If you have the date o
Op 8/24/2011 17:21, Chris Morris schreef:
Hi Chris,
Yes, I have seen quite a few inconsistencies in screen formulations.
Errors in listed conditions include recipe changes, but also typos both
in the vendor description and in the database entries. At the moment I'm
building a list of all discr
Dear John,
It is not the sequence identity/similarity that counts, but how similar
the protein folds are. For many protein families, the fold is identical
although the sequence identity is very low. With 25% sequence identity
and presumably a protein from the same family, I give you a good chance
