y take a look into config.log to read the error message
> why your gcc-compiler does not work? You should start at the end of the
> log file and scroll backwards until you find the error message.
>
> Best,
> Tim
>
> On 03/03/2014 03:51 PM, wu donghui wrote:
> > ---
-- Forwarded message --
From: wu donghui
Date: Mon, Mar 3, 2014 at 10:44 PM
Subject: Re: [ccp4bb] CCP4-6.4.0 source code building failed in Mac OS X
10.8.5
To: Marcin Wojdyr
Dear Marcin,
The reason that I want to build from source is that running ipmosflm can
not be done from
-- Forwarded message --
From: wu donghui
Date: Mon, Mar 3, 2014 at 7:07 PM
Subject: Re: [ccp4bb] CCP4-6.4.0 source code building failed in Mac OS X
10.8.5
To: Marcin Wojdyr
Dear Marcin,
Yes, I set CC=gcc-4.2.1 in cj.rc file or type in command line.
As is shown, it can
Dear all,
Recently, I download CCP4-6.4.0 source code from
http://www.ccp4.ac.uk/download/#os=mac. Following the instruction, tcltk84,
qt4, boost, python, cmake, zlib, libpng, openssl were built successfully.
Also ./build bzr, and ./update work fine.
gcc version in my Mac OS X 10.8.5 is as below
Dear all,
I want to know if there is any programe or software which is reliable in
your experience to predict protein solubility when expressed in E coli.
Thanks for any comment or input.
Best regards,
Donghui
Dear all,
I want to know your suggestions about current protein sequence alignment
programs. It seems that different programs give different alignment results
such as from analysis of Clustal W and MULTALIN. Thanks for any input or
comments.
Best regards,
Donghui
Dear all,
I need a script to renumber my image. My initial image number ranges from
*_1081.img to *_1440.img. There are 360 images in total. I want to renumber
these images with the ranges from *_361.img to *_720.img, that means every
initial image-720, but I don't know how to do it. Below is my s
luck,
> Pierre
>
>
> -Original Message-
> From: CCP4 bulletin board on behalf of wu donghui
> Sent: Wed 12/8/2010 4:40 PM
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] How to use XDS programme to process data collected at
> Q315r detector
>
> Marian
B-card in XDS.INP and delete all entries
> before
> DEFPIX
>
> You find an example of what I am talking about at the XDS wiki at
>
> http://strucbio.biologie.uni-konstanz.de/xdswiki/index.php/Tutorial(First_Steps)
>
> Maybe this helps,
> Tim
>
> On Wed, Dec 08,
ed, the number
> of pixels is 6144 and the pixel size is 0.0513. In your case, the file
> header tells you that you have binned data, with 3072 x 3072 pixels and a
> pixel size of 0.10259, and this is the information you need to give XDS.
>
> Yours,
>
> Marian Szebenyi
> Ma
ui
On Wed, Dec 8, 2010 at 11:03 AM, wu donghui wrote:
> Dear all,
>
> Recently I collected several data sets at 13B1 Taiwan beamline with Q315r
> detector. It's no problem to index these datasets using mosflm, but Rms
> residual and weighted residual is high. Here I wa
Dear all,
Recently I collected several data sets at 13B1 Taiwan beamline with Q315r
detector. It's no problem to index these datasets using mosflm, but Rms
residual and weighted residual is high. Here I want to try XDS to play my
data. I downloaded a template example as below.
!**
It does not look like protein crystal and IZIT staining is not reliable in
determining protein or other. Mostly it is like detergent or PEG crystal or
quasi-crystal.
Good luck
Wu
2010/8/31 qiangm zhang
> Hi all,
>
> I got a crystal of one membrane protein (~60kD) from Na/K phosphate
> co
Hi ccp4ers,
I found a problem when I used SHARP 2.6.0 Sushi 3.8.0 to search new heavy
atom sites from 2 identified sites from SnB. Sharp can output new identified
site lists however with all new identified sites set distance at zero with
the 2 sites and strangely the 2 sites all output as G0 site.
Hungerford, Berkshire, RG177HD, UK
>
> Directors: Peter Baldock, Patrick Shaw Stewart
>
> http://www.douglas.co.uk/
>
> Tel: 44 (0) 148-864-9090 US toll-free 1-877-225-2034
>
> Regd. England 2177994, VAT Reg. GB 480 7371 36
>
>
>
> *From:* CCP
Hi ccp4bbers,
I want to know if anyone has any experience about seeding (streak seeding or
microseeding) in microbatch under oil crystallization. I wonder if the oil
might block or wipe away the seeds if cat whisker is used for streak
seeding. Thank you for your input ahead.
Best regards,
Donghu
Two cents are added here.
First, try P2 as somethimes systematic absence along b axis is misleading
due to weak diffraction or pseduo translation.
Second, try P1.
Good luck,
Donghui
On Tue, Jan 26, 2010 at 1:50 AM, Michele Lunelli wrote:
> Dear all,
>
> I am trying to solve a structure at 2.
region moves upon ligand binding. Any recommendation for any program
which can do this task well. Thanks ahead.
Donghui
On Sun, Aug 9, 2009 at 8:37 PM, wu donghui wrote:
> Dear CCP4ers,
> Recently we have solved two structures from E.coli in high resolution,
> which have bound two
Dear CCP4ers,
Recently we have solved two structures from E.coli in high resolution, which
have bound two different ligands tightly already. Here I want to know if
there is any program which can let us model the structure of our apo
proteins confidently. Thanks ahead for any comment and input.
Reg
Diana,
We already got a new Art Robbins Phoenix crystallization robot recently and
very friendly as time consuming per plate is concerned. Theoretically your
strategy of aspirating one sample enough and dispensing into several 96 well
plate is feasible. However it should depend on the protocol se
You might have to test if it is salt/detergent or protein crystal first. If
it is really protein crystal, never give up and for needle crystal,
generally it is difficult to optimze, however in most cases, the diffraction
is well enough. If it is protein crystal, as some researcher has mentioned,
fi
Hi Chen,
In this case, it seems that linker region is of great importance for the
proper folding of the two linked domains. I have not much experience in
linker region design, generally use (GS)5-10 times. However it depends on
individual case. Anyone who has successful experience in linker region
>
> Hi Donghui,
>
> Have you tried a higher concentration of Lithium Sulfate? Try a
> saturated (~3M) stock and make sure your crystals is in it for less
> than 20 seconds. I've had a similar crystal condition in the past and
> 2 M Li2SO4 didn't cryoprotect.
>
> HTH
s have given problems.
>
> -Lokesh
>
> On Tue, Feb 26, 2008 at 9:30 PM, wu donghui <[EMAIL PROTECTED]> wrote:
>
> > Dear all,
> >
> > Recently, I got a crystallization condition as 0.1 M Bis tris ph 6.5,
> > 1.3M lithium sulfate, 0.1M NaCl, the shape of crystals
Dear all,
Recently, I got a crystallization condition as 0.1 M Bis tris ph 6.5,
1.3Mlithium sulfate,
0.1M NaCl, the shape of crystals is needle cluster, very difficult to grow
bigger, microseeding does not work, then I tried macroseeding, and found
crystal can grow bigger and rod like. However as
Dear all,
I just get into touch with x-ray crystallography, and I made a "big"
discovery that there is no C21 space group in monoclinic system, which
system only contains P2, P21 and C2 groups. Even in the entire 65 chiral
space group, there is no space for this group. I made an assumption that i
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