[ccp4bb] [Final Call] The International Symposium on Diffraction Structural Biology 2013

2013-03-11 Thread Atsushi Nakagawa
Dear all,

This is the final call for the International Symposium on Diffraction 
Structural Biology 2013.

The deadline for abstract submission is March 15.



Dear Colleagues,

We are pleased to announce the Scientific Programme for the 4th
International Symposium on Diffraction Structural Biology (ISDSB2013) to be
held May 26th to 29th 2013 at NAGOYA TRADE  INDUSTRY CENTER in Nagoya,
Japan.
This conference is the Fourth in the series of ISDSBs initiated in 2003 by
the Japan Society for the Promotion of Science (JSPS).
The University-Industry Cooperative Research Committee (#169) of JSPS, is
Chaired by Professor Noriyoshi Sakabe.

See:-
http://www.sbsp.jp/ISDSB2013/homepage/index.html

The scientific topics covered in ISDSB2013 will include the following
sessions:-
S1. Synchrotron and Free Electron Lasers
S2. New Methodology and instrumentation
S3. Drug design
S4. Tomography and imaging
S5. Membrane Proteins
S6. Neutron diffraction and hydration structure
S7. Membrane proteins and macromolecular complexes
S8. Protein structure and dynamics


We have confirmed speakers as advertised at the website above including two
Nobelists Lectures by Professor Thomas Steitz and Professor Brian Kobilka,
3 Plenary Lecturers and 32 Session Lecturers. 

There will be Poster sessions and also a Commercial and Industrial Companies
Exhibition as well as a visit to the NUSR:Nagoya University Synchrotron
Radiation Research Center.

In co-operation with the Journal of Synchrotron Radiation, we plan on
publishing the manuscripts presented in a special issue of JSR. Both invited
and contributed manuscripts will be subjected to the usual refereeing
process of JSR.


The concept of this Series of Symposia is to bring structural biologists
using diffraction and the scientists using a wide range of other advanced
technologies closer together as well as interlace where possible basic
research with industrial applications.

The 169th Committee was the first to propound the concept of the need for a
Symposium on Diffraction Structural Biology and thus led the way by
convening the first International Symposium on Diffraction Structural
Biology held in 2003. This, the detailed planning of the fourth in the
Series, again confirms its worth and value to this extensive, global,
research community. The immediately previous 3rd International Symposium on
Diffraction Structural Biology (ISDSB2010) was the first to be convened
outside Japan and took place in Paris and was successful in number and range
of countries and scientific fields represented. It again showed that the
continuing organization of these Symposia aims to present the
state-of-the-art frontiers of diffraction structural biology and its cognate
fields especially the microscopies and imaging.

Structural Biology has again progressed rapidly after ISDSB2010 and is
making clear the reaction mechanisms of molecular machineries which preside
within life processes. In terms of technologies and experimental techniques
an equally vital set of developments is underway. Of particular note are the
arrival of the 'ultimate storage ring' synchrotron radiation sources, the
results from the first X-ray Free Electron Lasers and the newer, more
intense, spallation neutron sources.  We are again planning to discuss the
integration of all kinds of structure determination methods so as to
understand more systematically the biological function of macromolecules,
and which are closely related to medical care or drug discoveries. We will
also intensively discuss a broad range of the latest discoveries in the
understanding of life processes at all length scales, from molecular to
cellular. These results and developments will firmly, wherever possible, be
with respect to the potential and/or actual applications to industrial uses.
These discoveries are based on the structures determined by X-rays,
electrons and neutrons as the core probes of matter, and by the other novel
techniques encouraging the broad development of structural biology.

Given the intense excitement in this field there is a very fruitful
potential to invite internationally eminent authorities. This upcoming
Symposium will again be identified as supplying the interface between
academic and industrial researchers, and also the interface between
diffraction technologies and the other active fields to discuss the research
breakthroughs.


We look forward to seeing you in Nagoya at ISDSB2013!


Yours sincerely,


Takashi Yamane, Chairperson of ISDSB2013
Noriyoshi Sakabe, Chairperson of #169 committee of JSPS
Local Organizing Committee of ISDSB2013

[ccp4bb] ncs operator in CIF cannot be handled by coot

2019-10-10 Thread Atsushi Nakagawa
Dear all,

  I cannot display the PDB1uv6 on coot, and finally, I found that 
_struct_ncs_oper category caused a problem.
  If I removed these items, I can display the file on coot.
  Cannot coot handle stuct_ncs_oper (equivalent to MTRIX in PDB format)?  Or is 
this a bug in the CIF read routine?
  Thank you for your help.

Atsushi



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Re: [ccp4bb] ncs operator in CIF cannot be handled by coot

2019-10-11 Thread Atsushi Nakagawa
Dear Paul

  Yes, it seems that CCP4 mmCIF-reading library has some incompatibility with 
this category.
  Which library do you use in coot?
  Best wishes,

Atsushi

> On Oct 11, 2019, at 11:01, Paul Emsley  wrote:
> 
> On 10/10/2019 11:27, Atsushi Nakagawa wrote:
>> Dear all,
>>   I cannot display the PDB1uv6 on coot, and finally, I found that 
>> _struct_ncs_oper category caused a problem.
>>   If I removed these items, I can display the file on coot.
>>   Cannot coot handle stuct_ncs_oper (equivalent to MTRIX in PDB format)?  Or 
>> is this a bug in the CIF read routine?
> 
> Dear Atsushi,
> 
> I see what you mean. The error message is not at all helpful, is it? - hmm. I 
> suspect that all CCP4 macromolecular mmCIF-reading programs (other than off 
> the top of my head, refmac) are similarly affected. You might like to check 
> that and take it up with CCP4.
> 
> Regards,
> 
> Paul.
> 
> 
> 
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Atsushi NAKAGAWA, Professor, PhD

Laboratory of Supramolecular Crystallography
Research Center for State-of-the-Art Functional Protein Analysis
Institute for Protein Research
Osaka University
Suita, Osaka 565-0871
JAPAN
Tel & Fax : +81-6-6879-4313
e-mail : atsu...@protein.osaka-u.ac.jp



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