Hi Wei,
if you tried both P3 and P6 and all subgroups, the right space group should
have been in there. By the way, the number of monomers in the a.u. will depend
on the exact space group (e.g. 1 in P622, 2 in P6 or P321, 4 in P3). There
might be a conformational change, which causes the MR prog
-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1
Dear Swastik Phulera,
after the word 'output.pdb' you must first hit the Enter-key which
takes you into the program pdbset.
Then you type
B_reset Minimum 0
END
and the program runs.
If you wish to do it without interaction, e.g. in a script, you can
Dear All,
I am trying to use pdbset from the terminal and am constantly getting an
error:
[XYZ@NCCS3 110613]$ pdbset XYZIN input.pdb XYZOUT output.pdb B_reset
MINIMUM 0
>> CCP4 library signal ccp4_general:Use:
(Error)
raised in ccp4fyp <<
pdbset: Use:
pdbset: Use:
Times: Us
Perhaps my question was not expressed well. I wanted to know if proteins
crystallize more frequently when the protein concentration is in the range
5-30mg/ml.
The answer pointed out by my colleague Todd Green is on the page
http://www.douglas.co.uk/PDB_data.htm
Thanks for your inputs.
Debasish
Hi Theresa,
I think you have to be very careful with NMR of homo-oligomers, even if
they’re small proteins: the NMR model/structure (backbone only) of a small
integral membrane kinase was a huge effort -
http://www.ncbi.nlm.nih.gov/pubmed/19556511
but is very different from the recently published
I guess Wei means just the lattice symbol, taken from the indexing program?
br
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
Eleanor Dodson
Sent: Monday, June 10, 2013 10:52 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Hi
I don't really und
The other obvious conclusion would be that dataset #3 is a different protein
perhaps ?
How about pointless for your third dataset ?
Jürgen
On Jun 10, 2013, at 2:57 PM, Wei Shi wrote:
Hi all,
I was trying to solve the structure of a protein in several different datasets
using xds and phenix. I c
Hi Eleanor,
C2 - this was XDS lingo or Bravais talk :-)
Jürgen
** LATTICE SYMMETRY IMPLICATED BY SPACE GROUP SYMMETRY **
BRAVAIS-POSSIBLE SPACE-GROUPS FOR PROTEIN CRYSTALS
TYPE [SPACE GROUP NUMBER,SYMBOL]
aP [1,P1]
mP [3,P2] [4,P2(1)]
mC,mI
I don't really understand what your space group is? space group mC???
Eleanor
On 10 Jun 2013, at 19:57, Wei Shi wrote:
> Hi all,
> I was trying to solve the structure of a protein in several different
> datasets using xds and phenix. I could solve the structure from one dataset
> in space group
Dear Debasish
What do you mean by percentage? do you mean consentration? so if you mean cons.
I think you should test you protein using a TCP kit to observe at what cons.
would your protein precipitate, this way you would verify the convinient cons.
for your protein before crystallization
Best
Hi all,
I was trying to solve the structure of a protein in several different
datasets using xds and phenix. I could solve the structure from one dataset
in space group P4. For another dataset, I could solve the structure using
the monomer of the structure I got from the first dataset as search mo
Dear Debasish,
you can use REMARK 200 field in pdb file. Sadly, this field is not
mandatory so not everyone provide protein concentration info.
10.06.2013 18:49, Debasish Chattopadhyay ?:
What would be a convenient way to estimate what percentages of
proteins have been crystallized in a
What would be a convenient way to estimate what percentages of proteins have
been crystallized in a concentration range, for example 5-30 mg?
Debasish Chattopadhyay
University of Alabama at Birmingham
CBSE-250
1025 18th Street South, Birmingham, Al-35294
USA
Ph: (205)934-0124; Fax: (205)934-0480
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