Dear colleagues,
I am analyzing a helical segment that looks a bit off from the
traditional alpha-helix. Does anyone knows a program for calculating
alpha helix translation per residue along the helical axis?
Thanks,
Young-Tae
Young-Tae Lee, Ph. D.
Research Associate
David Goodin lab
Dept
...@ysbl.york.ac.uk]
Sent: Thursday, June 24, 2010 4:57 PM
To: Young - Tae Lee
Cc: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] LINK option during refinement
In your run with the option residues are close only refmac also
should generate a pdb file with link records added. In very simple
form you
Dear Dr. Murshudov,
I am working on the heme protein with a surface Cys residue
covalenlty linked to another molecule through its SG atom.
Here is a part of log file.
--
INFO: link is found (not be used) dist= 2.188 ideal_dist=
2.300
ch:AA res: 400
subunit in different
orientation. Suggestiona would be appreciated.
Thnaks in advance
Peter
Young-Tae Lee, Ph. D.
Research Associate
David Goodin lab
Dept. of Molecular Biology
The Scripps Research Institute
300 cycles of refmac5 refinement. Then R/Rfree converged to
0.20/0.25.
However, I am not sure whether this improvement was really from
correcting order of scale/merge and reindex, or still from including
previous test data in the new refinement.
Thanks,
Young-Tae
Young-Tae Lee, Ph. D
Here is one like that.
Chaperoned Ubiquitylation—Crystal Structures of the CHIP U Box E3
Ubiquitin Ligase and a CHIP-Ubc13-Uev1a Complex .
Molecular Cell , Volume 20 , Issue 4 , Pages 525 - 538
M . Zhang , M . Windheim , S . Roe , M . Peggie , P . Cohen , C .
Prodromou , L . Pearl
Hi Brett,
As Filip pointed out, pulldown assay is not an equilibrium
experiment. In addition, one of protein should be attached to the
resin in the pulldown assay, which might not be sometimes favorable.
You might not want to make very quantitative analysis on the pulldown
results.
If
