Hi Bernhard
The CCP4/PDBSET/ALMN/AMORE (but NOT X-PLOR ...) convention is:
gamma about z, beta about *fixed* y, alpha about *fixed* z
OR
alpha about z, beta about *rotated* y, gamma about *rotated* z.
... but NOT any other combination of these!!!
In t
All - is anyone else getting this response every time they post a
message or is it just me? The received header shows
<[EMAIL PROTECTED]> (ms1.kissei.co.jp [210.238.65.82]).
-- Ian
> -Original Message-
> From: JISCMAIL LISTSERV Server (14.5)
> [mailto:[EMAIL PROTECTED]
> Sent: 15 Augus
Hi Ian and list,
I don't know about rejected postings, as I've not made any recently, but
I am getting two copies of each posting made and the second has gone
through the same server as below:
Received: from ms1.kissei.co.jp ([210.238.65.82]) by
a12536.general.kissei.co.jp (Lotus Domino R
Ian,
yesterday evening I posted "Re: [ccp4bb] coot in stereo". I then got an
email "Rejected posting to CCP4BB@JISCMAIL.AC.UK" . The header indicates
that it indeed comes from ictmailer1.itd.rl.ac.uk; no other email
address but mine is involved. I have no explanation for this as I surely
only
Ditto - I am getting everything in duplicate
Eleanor
Andy Purkiss-Trew wrote:
Hi Ian and list,
I don't know about rejected postings, as I've not made any recently, but
I am getting two copies of each posting made and the second has gone
through the same server as below:
Received: from ms1.kiss
Bernhard
Sorry, correction, this statement in my last posting is not correct:
"... by having first say gamma, then beta, then alpha about
rotated axes: the component matrices are the same as for the correct
rotated axis case, but because they are multiplied in reverse order it
will give you a c
Check, thanks for the heads up. I have removed the eiichi_tsuiji
address from the list, which I guess was bouncing e-mails (miss
configured spam filtering perhaps). Interestingly, this was not one
of the 51 addresses being monitored.
We are running with automatic removal to try and redu
Apologies for the non CCP4 question.
Does anyone have an XDS.INP file that is configured for data from ID-13 ESRF.
The specific setup I am after is from several years back when the station was
arranged with a MAR 133 CCD detector. I have thus far tried and failed to get a
standard XDS.INP to run c
Similar thing was happening on the dual Xeon 2.8 GHz machines in "O" as well.
But it was 2-5 sec long in time.
Vaheh Oganesyan
-Original Message-
From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] Behalf Of Kay Diederichs
Sent: Tuesday, August 14, 2007 3:54 PM
To: CCP4BB@JISCMAIL.AC.UK
test 2
Dr. Colin W. Levy schrieb:
Apologies for the non CCP4 question.
Does anyone have an XDS.INP file that is configured for data from ID-13 ESRF.
The specific setup I am after is from several years back when the station was
arranged with a MAR 133 CCD detector. I have thus far tried and failed to ge
Hello CCP4bb,
CCP4mg version 1.1 (beta2) is now available from
http://www.ysbl.york.ac.uk/~ccp4mg
New features include:
Picture Wizard - set up standard scenes automatically (and easier
labeling)
Less automatic superposition to complement the SSM automatic tools
Lipid cartoons
Editable picture
Hi all,
I have several (5 at least) SGI Indigo II systems that I used for
crystallography for years. I'm looking to see if anybody needs them for
parts/use? I'm not looking to make money here, but I don't want to pay
anything either (so you pay shipping/packaging and you can have them).
Al
test..
Sorry about this not being exactly CCP4 related, but I think it is still of
general interest to the
structural biology community:
I am dealing with a membrane protein which seems, on the surface, to present a
contradiction:
We know from western blots and other data that this protein forms olig
Hi Jacob,
as far as I understand it, proteins also oligomerise to share a stable
core. For example, some proteins form tetramers and minimise the material
needed to form a scaffold around their active centres. Could that be the
case for your protein as well?
Best regards, Daniel
--
Daniel Schl
I forgot to mention we also tried urea, at various concentrations.
JPK
==Original message text===
On Wed, 15 Aug 2007 11:39:14 am CDT Jacob Keller wrote:
Sorry about this not being exactly CCP4 related, but I think it is still of
general interest to the
structural biol
Dear all,
what does it mean when a structure doesn't have many water molecules?
I have a 2.3A data set, 2 molecules in the AU (260 residues each), space
group C2221 - I haven't finished my water search but I don't seem to have
more than 20-30 obvious/good water molecules. The Rfac/Rfree are 22/30
Hi,
Here is a result (attached) of analyzing over 2000 Structural Genomics
structures. At ~2 A resolution, you would roughly expect 1 water for every two
residues.
Thanks
Abhinav
Stanford Synchrotron Radiation Laboratory
Joint Center for Structural Genomics
Mail Stop 99
Phone: (650) 926-2
Hi, anyone know of a lysozyme-equivalents for protein-DNA complexes?
i.e. a protein that
a) is easy to obtain (preferably purchase)
b) binds some bit of DNA well
c) crystallizes easily as protein-DNA complex
Cheers
phx
Hi Frank,
I forgot to mention that the once purified, the protein is fairly stable and
can be frozen and re-used for continued crystallization experiments. So, even
though it is not available for purchase, it is a convenient system and having
worked on it, it seems to me to be a model protein
Hi Frank,
The N-terminal catalytic fragment/polymerase domain of the MuLV Reverse
Transcriptase is easy to express (large yield of soluble protein in E. coli
expression, ~270 aa), purify (3 steps) and crystallize (overnight to couple of
days with microseeding) with short stretches of DNA (8-1
Hi ,
Please help me on this structure:
Data 1.8A: cell 84.892 84.892 172.580 90 90 90 with tetrahedral index
Space group: P43212 or P43, Final refinement Rfree indicates P43 is better
so most likely P43(also the systematic absence indicate P43 is it)
Matthew coeffient indicates: P43 3mol/a.u(2.5
Hi Yanming,
when you use your two correctly placed molecules have you tried to
calculate a composite omit map using CNS. I assume your crystal lattice
does not look very well packed when you only have two molecules per asu
? That would be a good indication that your third molecule is truly
th
Hi Yanming,
>>Story ends with my questions:
>>1,It seems the 3rd copy non-exist or globally disordered, under this
>>circumstance, can I say 'because of the 3rd molecule is globally disordered
>>so
>>>Rfree and R stay high (2mol/a.u with Rfree 30% R 27%, 1.8A data)?
After finding the first
Maybe it is really P43 but twinned, with probably only two molecules in
the asymmetric unit. You can easily check this by putting it into SHELXL
with the instructions TWIN 0 1 0 1 0 0 0 0 -1 and BASF 0.4, or with the
new phenix refine (still beta test I think). Or wait for the next REFMAC.
Geor
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