Blob one is something possibly distorted by alternate partial occupancy
binding sites near a symmetry axis. Blob 2 could be a chloride ion, or if
that is not enough density, maybe bicarbonate. Blob 1 seems to be attracted
two His residues, of the things in your mixture, Mg(II) seems possible or
Cl-
Looks like it's at a symmetry/NCS axis, so that complicates appearances...
JPK
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Lucas
Sent: Monday, October 02, 2017 6:06 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Yet another "what's my blob" thr
Acetate or carbonate? It seems flat, loves arginine and does seem to hbond
with a his...
On Oct 2, 2017 6:06 PM, "Lucas" wrote:
> I'm in the later stages of solving a structure which contains two
> tetramers in the asymetric unit. I found these two blobs (in
> equivalent positions on each tetram
Dear all,
How does one exclude water from anisotropic refinement in refmac5.8 under
ccp4-7.0
Here is the relevant section from the com file,
refi -
type REST -
resi MLKF -
meth CGMAT -
bref MIXED anisou residues from 100 A to 200 A
This does not work and the logfile has the foll
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Hi,
Looks like you have some density for same conformation as in A chain.
It could be you have two (or more) conformations for some parts of the
structure in MolB. It is often tricky to sort out when you have two
conformations for residues and map is ambiguous (and at 2.8A).
I would rigid b
Not much idea.
I tend to build small amounts at the termini of your current model using
the better model as a guide then re-refine and hope you can keep going..
Eleanor
On 2 October 2017 at 15:42, Vikram Dalal wrote:
> Hi all,
>
>
> I am solving a protein data of 2.6 A. It has two monomers in A
Our RPA14/32 crystals from 2007 included full length protein for both
subunits (RPA14 and RPA32), but only the central OB fold of RPA32
could be modelled. The crystals included RPA32(1-270) but only 42-176
could be modelled. I remember being very frustrated by not being able
to visualize the wHLH
Hey Rajesh
You may try the following link:
Please enter the protein sequence, and scroll down the "Select standard
database" tab, and choose "pdb_nr". Once you will "submit" the job, you
will most likely get what you want to see!
You may pick any pdb ID from the result section, and from pdb.org,
That is very pleasing! Ramachandran vindicated yet again..
Eleanor
On 2 October 2017 at 10:31, Meytal Galilee wrote:
> Dear all,
> Many thanks for your responses.
> Indeed the peptide was wrong handed, flipping the peptide chain fixed all
> my outliers issues!
> Thanks again!
> Meytal
>
> 2017-1
Dear all,
Many thanks for your responses.
Indeed the peptide was wrong handed, flipping the peptide chain fixed all
my outliers issues!
Thanks again!
Meytal
2017-10-01 23:12 GMT+03:00 Eleanor Dodson :
> That seems strange! You couldn't have built it in the wrong direction
> could you?
>
> Or have
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