Dear Francois, Intekhab
the correct reference for the Sc statistic is
Lawrence, M. C. & Colman, P. M. (1993). Shape complementarity at
protein/protein interfaces. J. Mol. Biol. 234, 946-950.
You can also find a description in the March 2001 CCP4 newsletter (#39).
I am not certain why you cannot
A
touch ~/environ.def
might help, although, if I remember correctly, somebody had suggested a more
elegant solution some time ago on this bb.
Tim
On Thu, Nov 11, 2010 at 12:57:44PM -0800, Jerry McCully wrote:
>
> Dear ALL;
>
>Recently we updated our CCP4 to 6.1.13 with CCP4Interface2.0.
Dear ALL;
Recently we updated our CCP4 to 6.1.13 with CCP4Interface2.0.6. However,
there is an error when we ran autobuster.
The error messenge from Buster:
a check of the input MTZ file
(test.mtz) gave an
error - even after we tried to fix it. For details
Hi all,
We have two new openings at the Protein Data Bank in Europe (http://pdbe.org -
part of the European Bioinformatics Institute in Cambridge, UK) to work in the
Databases & Services team:
- Software/Database Engineer
http://ig14.i-grasp.com/fe/tpl_embl01.asp?s=AdmOlRWtGeVHmJjVeb&jobid
model_phase.inp
On Wed, 2010-11-10 at 21:31 -0800, Matt Colins wrote:
> Hi,
>
> I am trying to calculate phases and FOM from a model map. However, CNS 1.2
> model_map.inp does not output map phases and FOM. Instead, it only gives map
> coefficients. My question is how to convert these map coef
Dear Colleagues,
We have a position available for a Scientific Support Officer (SSO) in the MX
group at the Australian Synchrotron. This is a permanent position and the
successful candidate will join the MX team and work at both MX beamlines (3BM1
and 3ID1). Applications close on Sunday the 5th
use the following procedure.
1) immediately after use pass freshly prepared cold reduce glutation 20mM ,
1mM
EDTA in 50mM tris ph8.0. 2-3 CV,
2) wash alternate with buffer 1 and buffer 2 (GE lifescience), 2 cv, 4-5 times,
then 1M Nacl 2-3 cv
3) wash with pbs , 5 CV
4) wash with 1% triton, 3
In CNS v1.2, you have the input file called "model_fcalc.inp". So what I would
do is to generate these Fc's from the model, then "insert" them into an mtz
that contains your Fo's, and use SIGMAA to generate the Sigmaa figures of
merit. Or use another program to generate e.g. Sim weights.
HTH,
Hi,
you should be able to run SC from the command line or from a short shell
script:
#!/bin/sh -f
sc xyzin FAb-antigen.pdb << eof-sc
Molecule 1
CHAIN A
MOLECULE 2
CHAIN B
end
eof-sc
cheers
Stefan
Von: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] Im Auftrag von
i
Hi,
This is the first time I read about "shape complementarity statistics".
According to:
"A structural basis for the activity of retro-Diels–Alder catalytic
antibodies: Evidence for a catalytic aromatic residue"
As seen here:
http://www.pnas.org/content/99/15/9674.full
---
[...] compute the
I want to calculate the shape comlementarity statitics (SC) of a dimeric
protein using CCp4. I am using CCP4 6.1.3 on windows but the SC program is
not available in that suite.
Which version of CCP4 has that program. Are there any other programs that
can calculate that.
Thanks
--
INTEKHAB ALAM
L
11 matches
Mail list logo
