[ccp4bb] Postdoctoral fellowship available for studies of adhesion in bacterial conjugation

[Ronnie Berntsson]

Dear all,

A postdoctoral fellowship is available in my group at Umeå University, Sweden 
(https://www.biostruct.umu.se/principal-investigators/ronnie-berntsson/).
Our lab studies bacterial conjugation via Type 4 Secretion Systems, with a 
special focus on gram-positive bacteria. The open position revolves around 
understanding the structure and function of the adhesion proteins that 
facilitate the cellular mating pair formation.

Our lab is part of the Integrated Structural Biology at Umeå University and is 
fully equipped for biochemistry and structural biology, with on site access to 
local facilities in x-ray crystallography (mosquito, RockImager, formulator 
etc), electron microscopy (Titan Krios, Talos 120 kV, Scios Dual beam for 
FIB-Milling).

We would like to recruit a postdoc with prior experience in protein 
expression/purification, biochemistry and structure determination.

For full detail regarding the position and how to apply, please see 
https://www.biostruct.umu.se/postdoc-position-available-in-the-berntsson-lab-study-of-adhesion-proteins-in-g-t4sss/

Best wishes,
Ronnie

--
Ronnie Berntsson, PhD
Associate Senior Lecturer
Wallenberg Molecular Medicine Fellow
Department of Medical Biochemistry and Biophysics
Umeå University
90187 Umeå
Sweden

e-mail: ronnie.bernts...@umu.se
phone: +46 90 7865235
web: https://www.biostruct.umu.se/principal-investigators/ronnie-berntsson/








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[ccp4bb] 6th International Symposium on Diffraction Structural Biology: First Announcement

[Leighton Coates]

Dear Colleague

You are invited to the 6th International Symposium on Diffraction
Structural Biology which will take place at the University of Osaka in
Japan.

Start Date: 17th Oct 2019
End Date:  20th Oct 2019

URL:  https://isdsb2019.symposium-hp.jp/

The 6th International Symposium on Diffraction Structural Biology
(ISDSB2019) is an international symposium organized by the Japan
Society for the Promotion of Science, University-Industry Research
Cooperative Research Committee, 169th Committee on Structural Biology
using Diffraction Techniques. This symposium is positioned as an
interface between academic researchers and industry researchers, as
well as an interface between diffraction techniques and other related
techniques in the field of structural biology. Symposium topics will
include Macromolecular crystallography, CryoEM, software and
databases, and drug discovery, registration and abstract submission
for the symposium is now open and costs 25,000 Japanese yen for
academics.

A list of confirmed speakers for the symposium is currently being
finalized; this will be posted on the symposium website within the
next few days.

Contact:   Atsushi Nakagawa (Osaka University)

Email: isdsb2...@gmail.com

URL:   https://isdsb2019.symposium-hp.jp/



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[ccp4bb] Help for BALBES Results

[Vikram Dalal]

Hi All,

I want to get the phases from balbes. have submitted my data to BALBES
(online ccp4i). I am getting the results in txt file only.

I am not getting the mtz and model result files.

I would be very thankful for suggestions.



Thanks & Regards,



[image: Mailtrack]

Sender
notified by
Mailtrack

07/02/19,
06:44:52 PM



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[ccp4bb] Call open for LTP and BAG beamtime at DESY beamline P11, PETRA III, Deadline: 15.07.2019

[Anja Burkhardt]

Dear all,

Hereby I would like to invite the submission of Long-Term Projects (LTP) and 
Block Allocation Group (BAG) proposals for DESY beamline P11 at the PETRA III 
synchrotron in Hamburg.

The call is open until Monday, 15 July 2019 (inclusive; CEST/UTC+2) and relates 
to beamtime to be allocated during the period 2020 (first half) - 2021 (second 
half). 
Detailed information, preparation guidelines and templates for LTP and BAG 
proposals are provided here:
https://photon-science.desy.de/users_area/user_guide/select_the_proposal_type

Beamline P11 is dedicated to structural investigations of biological samples 
from atomic to micrometer length scales and currently provides two experimental 
endstations: an X-ray microscope (under construction) and a crystallography 
experiment which is in user operation since 2013.

Specific features of the P11 crystallography endstation:
• High photon flux (1.3 × 10^13 ph/s at 12 keV) at the sample position 
• Broad energy range from 5.5 - 26 keV
• Full SAD/MAD capability
• High-precision single axis goniostat
• Fast data collection via Pilatus 6M detector (25 Hz frame rate, 154 – 
2000 mm sample-to-detector distance)
• Fast automatic sample changer (20 s) with uni-puck compatibility and 368 
sample storage capacity
• Cryo-shutter for crystal annealing
• Beam size tunability from 4 × 9 µm² (microfocus) to 300 × 300 µm² (flat 
beam) within a minute
• Microbeam capability (4 × 9 µm² focal spot with 1.3 × 10^13 ph/s photon 
flux and 1 × 1 µm² with 2 × 10^11 ph/s)
• Serial synchrotron crystallography using liquid sample delivery like 
(tape-drive setup) and fixed targets (microporous Si-chips)
• Parallel beam option for large unit cell systems
• Data collection via Python-based GUI 
• Automated data processing with XDSAPP 
• 40 core workgroup server for fast data processing
• S2 level laboratory for sample preparation

For detailed information about our experimental setup please visit our homepage 
http://photon-science.desy.de/facilities/petra_iii/beamlines/p11_bio_imaging_and_diffraction

On behalf of the P11 team,
Anja Burkhardt 



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[ccp4bb] CCP4mg trouble making movies

[Anastassis Perrakis]

Dear all,

I am having some trouble with ccp4mg 2.10.10 and making movies on a Mac running 
OSX 10.13.6

I am trying now for a test a single-scene movie of 2sec “rock”. The movie 
previews  fine.
When I “make movie” the scene directory and the frames are created, and I get a 
window telling me:
“For movie test / Converting frames to scene movie / and merging scene movies” 
However, nothing is happening - no files and my CPU is blissfully idle.

Any hints/clues?

Thanks,

Tassos



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[ccp4bb] Issues with stero in Wincoot

[Reddiravikumar Kumar]

Dear all,

  We are trying to install stereo in Wincoot in windows 10 pro,
64 bit computer. We have installed nvidia quadro K4000 graphics driver in
our system. The stereo is working well with Pymol, but keep crashing on
Wincoot. Can you anyone experienced the same issue and how can I fix this
issue?

Thanks,
Ravikumar.



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Re: [ccp4bb] CCP4mg trouble making movies

[Jon Agirre]

Hi Tassos,

can you try a standalone CCP4 installation? I seem to recall ffmpeg was
missing from the regular CCP4 distro and therefore that bit didn’t work.

Cheers
Jon

On Tue, 2 Jul 2019 at 17:22, Anastassis Perrakis  wrote:

> Dear all,
>
> I am having some trouble with ccp4mg 2.10.10 and making movies on a Mac
> running OSX 10.13.6
>
> I am trying now for a test a single-scene movie of 2sec “rock”. The movie
> previews  fine.
> When I “make movie” the scene directory and the frames are created, and I
> get a window telling me:
> “For movie test / Converting frames to scene movie / and merging scene
> movies”
> However, nothing is happening - no files and my CPU is blissfully idle.
>
> Any hints/clues?
>
> Thanks,
>
> Tassos
>
> 
>
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1
>
-- 
Dr Jon Agirre
Royal Society University Research Fellow
York Structural Biology Laboratory / Department of Chemistry
University of York, Heslington, YO10 5DD, York, UK
http://www.york.ac.uk/chemistry/research/ysbl/people/staff/jagirre/
Office: /B/K/065 Phone: +44 (0) 1904 32 8252
Twitter: @glycojones



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[ccp4bb] wincoot recovering sessions

[Filip Van Petegem]

Hello all,

using some large maps, my Wincoot likes to crash every now and then. I'd
like to be able to recover the various maps and models I have open
simultaneously, without having to read in everything again from scratch to
get the same parameters.

Has anybody had any luck using the 'recover session' in Wincoot?  I just
get the 'there's nothing to recover' message.

Other than the obvious comment of switching to Linux or Mac, I'd be curious
to see if anybody has been able to restore sessions in Wincoot, or has
found another workaround for having to re-read and re-adjust everything.

best regards,

Filip Van Petegem

-- 
Filip Van Petegem, PhD
Professor, Dept. of Biochemistry and Molecular Biology
The University of British Columbia
2350 Health Sciences Mall - Rm 2.356
Vancouver, V6T 1Z3

phone: +1 604 827 4267
email: filip.vanpete...@gmail.com
http://crg.ubc.ca/VanPetegem/



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[ccp4bb] Postdoctoral positions available on protein misfolding in Atlanta, GA

[Lieberman, Raquel L]

The Lieberman lab in the School of Chemistry & Biochemistry at Georgia 
Institute of Technology in Atlanta, GA invites applications for Postdoctoral 
Fellows.
Our research projects focus on molecular aspects of protein misfolding in one 
of two systems related to human disease. Our interdisciplinary lab combines 
biochemical, biophysical, and cell biology methods with structural biology 
approaches (X-ray crystallography, small angle X-ray or neutron scattering, 
NMR, cryoEM). We seek to better understand what differentiates diseased 
proteins from their wild-type counterparts, and use this information to develop 
new diagnostics and therapies. More information is available on our website 
http://ww2.chemistry.gatech.edu/lieberman/.
Candidates must have a Ph.D. degree in life sciences, chemistry, biological 
physics, and related fields. Hands-on expertise and publication record in any 
(but not all!) of the following areas is also required: protein biochemistry 
(e.g. enzyme, binding assays, membrane proteins), biophysics (e.g. 
spectroscopy, kinetics of aggregation, AFM imaging), cell biology (e.g. 
mammalian cell culture, Western blotting), or structural biology (e.g. 
crystallography, SAXS, SEC-MALS, NMR).  Experience with molecular biology, 
protein expression and purification are also desirable.
To be considered for a position, please send an email to Raquel Lieberman, 
raquel.lieber...@chemistry.gatech.edu.
 Include your curriculum vitae as well as a short cover letter describing 
research experience, and why you think you would be a good fit for our research 
team.
Georgia Institute of Technology is a top public university in the USA located 
in the urban heart of Atlanta, GA. Georgia Tech is committed to recruiting, 
developing, retaining, and engaging a diverse cadre of students, faculty, and 
staff with a wide variety of backgrounds, perspectives, interests, and talents.

-
Raquel L. Lieberman, Ph. D.
Professor
School of Chemistry & Biochemistry
Georgia Institute of Technology
901 Atlantic Dr. NW
Atlanta, GA 30332-0400



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