[ccp4bb] Final notice - British Biophysical Society

[Mads Gabrielsen]

Can I please draw your attention to the Biannual British Biophysical Society
meeting in September, this year organised in Swansea, UK. 

 

Registration deadline is the 28th August. 

 

BBS Biennial Meeting Swansea 2024 (britishbiophysicss.wixsite.com)
<https://britishbiophysicss.wixsite.com/swansea2024> 

 

The meeting is in-person only, although some talks may be recorded for
posterity. 

 

Mads

 

Mads Gabrielsen MSc PhD Cert PStat (He/Him)

Technical Lead

 

Integrated Protein Analysis Facility

 

Room B4-13

Joseph Black Building

University of Glasgow

G12 8QQ

 

+44 141 330 6447

 

 <mailto:mads.gabriel...@glasgow.ac.uk> mads.gabriel...@glasgow.ac.uk

 

 <https://www.gla.ac.uk/colleges/mvls/shared-research-facilities/>
https://www.gla.ac.uk/colleges/mvls/shared-research-facilities/

 

 

 

 




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] British Biophysical Society Biannual meeting - Registration open

[Mads Gabrielsen]

Dear all, 

 

The registration for the biannual meeting of the British Biophysical Society
is now open. Please come and join us in Swansea in September. 

 

 

https://britishbiophysicss.wixsite.com/swansea2024

 

 

 

Cheers, 

 

Mads

 






To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] 3 cryo-EM facility positions at Scottish Centre for Macromolecular Imaging, Glasgow, UK

[Mads Gabrielsen]

On behalf of Dr James Streetley. Please pass all enquiries to him.

Dear colleagues,

The Scottish Centre for Macromolecular 
Imaging (SCMI) is 
Scotland’s national cryo-EM facility, based at the University of Glasgow. Using 
our JEOL CRYO ARM 300 with Direct Electron Apollo and DE-64 detectors, we 
provide cryo-EM access to consortium members and external partners across 
Scotland. We also run a sample preparation lab and microscopes for specimen 
screening for local use.

Thanks to additional investment in the facility by the University of Glasgow, 
we are looking to recruit three support scientists to work with our users and 
develop the facility.

Glasgow is often listed as one of the top cities in the 
world
 and is especially known for its friendliness. In addition to the benefits of 
living in a vibrant city with rich heritage, our location on the west coast of 
Scotland gives great access to the Scottish countryside including the highlands 
and islands.

Senior Cryo-EM Support Scientist
Grade 7 (£39,347-£44,263), open-ended contract

These roles will focus on user training and support, setting up data 
collections and further development and optimisation of the facility.
This post is eligible for visa sponsorship.
Full details and application portal: 
https://my.corehr.com/pls/uogrecruit/erq_jobspec_version_4.jobspec?p_id=145750

Senior Cryo-EM Data Scientist
Grade 7 (£39,347-£44,263), open-ended contract

This role will be to provide expert assistance to users with their data 
processing tasks and manage the user experience post-acquisition: 
pre-processing, data delivery and eventual archiving.
This post is eligible for visa sponsorship.
Full details and application portal: 
https://my.corehr.com/pls/uogrecruit/erq_jobspec_version_4.jobspec?p_id=145749

Cryo-EM Support Scientist
Grade 6 (£32,332 - £36,024), open-ended contract

This role will manage operations in our sample preparation lab with a view to 
providing imaging support as the postholder’s experience grows.
This post may be eligible for sponsorship under the skilled worker visa, if the 
applicant can use the new entrant tradeable points scheme.
Full details and application portal: 
https://my.corehr.com/pls/uogrecruit/erq_jobspec_version_4.jobspec?p_id=145751

All positions are eligible for relocation assistance where appropriate.
The closing date is 4th June, 23:45.

I am happy to take any questions via email but please note applications must go 
through the University’s portal to be considered.

Best wishes,
James

Dr James Streetley

SCMI Facility Manager
Scottish Centre for Macromolecular Imaging
Sir Michael Stoker Building
464 Bearsden Road
Glasgow
G61 1QH
United Kingdom

+44 141 330 2161 (office)
+44 141 330 7495 (microscope suite)
https://www.gla.ac.uk/researchinstitutes/iii/cvr/facilities/scmi/







To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] British Biophysical Society: 2024 Biennial meeting - save the date!

[Mads Gabrielsen]

I would like to draw your attention to the upcoming meeting. This meeting
covers a range of biophysical methods, including structural biology. 

 

 

 

The British Biophysical Society (BBS) Biennial Meeting 2024

University of Swansea Bay Campus

11-13 September, 2024

 

 

We'll look forward to seeing you there!

 

 

Mads Gabrielsen MSc PhD Cert PStat (He/Him)

British Biophysical Society Committee

Technical Lead

 

Integrated Protein Analysis Facility

 

Room B4-13

Joseph Black Building

University of Glasgow

G12 8QQ

 

+44 141 330 6447

 

 

 

 <mailto:mads.gabriel...@glasgow.ac.uk> mads.gabriel...@glasgow.ac.uk

 

 
<https://www.gla.ac.uk/researchinstitutes/biology/research/structuralbiology
biophysicalcharacterisationfacility/>
https://www.gla.ac.uk/researchinstitutes/biology/research/structuralbiologyb
iophysicalcharacterisationfacility/

 

I am a Community Co-lead for the University's Research Culture Commons.
<https://sway.office.com/9drZIE9aWZHvxD8E> Join the network here. Find out
more about how the University is working towards
<https://www.gla.ac.uk/myglasgow/ris/researchculture/> our five Research
Culture Priorities. Tell us what makes a thriving research culture via this
<https://forms.office.com/r/8e2gy4E1zv> anonymous comment form.

 




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] New Facilities IT post - University of Glasgow

[Mads Gabrielsen]

An exciting new opportunity has arisen to join the University of Glasgow’s 
Research Computing as a Service (RCaaS) team, delivering world class computing 
support within the new College of Medicine, Veterinary and Life Sciences (MVLS) 
Research Facilities.

You will be working with structural biologists, mass spectroscopists, 
microscopists etc. 

 

https://www.gla.ac.uk/explore/jobs/appointments/125908/

 

Please address any questions about the position to ronan.d...@glasgow.ac.uk 
<mailto:ronan.d...@glasgow.ac.uk> .

 

Cheers,

 

Mads

 

 

Mads Gabrielsen MSc PhD Cert PStat (He/Him)

Technical Lead

 

Integrated Protein Analysis Facility

 

Room B4-13

Joseph Black Building

University of Glasgow

G12 8QQ

 

+44 141 330 6447

 

mads.gabriel...@glasgow.ac.uk <mailto:mads.gabriel...@glasgow.ac.uk> 

 

https://www.gla.ac.uk/researchinstitutes/biology/research/structuralbiologybiophysicalcharacterisationfacility/




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] Cryo- EM postdoctoral position in Glasgow

[Mads Gabrielsen]

A post-doc position in cryo-EM is available in Glasgow (see below). Please
address all inquiries to paula.dafons...@glasgow.ac.uk
 . 

 

Cheers,

Mads

 

Dear all,

 

I'm looking for enthusiastic candidates for a postdoctoral position in my
lab at the University of Glasgow. The work will be focused on the regulation
of the human proteasome. The work will primarily involve protein
purification, biochemical/biophysical characterisation, and cryo-EM
analysis. The lab is fully equipped for protein preparation and
characterisation and the group has access to the microscopes at the Scottish
Centre for Macromolecular Imaging. Direct experience on cryo-EM is
desirable, but not essential.  The lab is located at the Garscube Campus,
adjacent to the Scottish Centre for Macromolecular Imaging and the Beatson
Institute, at the western edge of Glasgow and within easy reach to both the
city of centre and the surrounding countryside, including Loch Lomond not
far away.

 

For further information and to apply, go to:  

 

https://my.corehr.com/pls/uogrecruit/erq_jobspec_version_4.jobspec?p_id=0987
09

 

If you have any questions just write to me directly:
 paula.dafons...@glasgow.ac.uk

 

The application deadline is the 31st October.

 

Best wishes

 

Paula

 

--

Paula da Fonseca

Professor of Cryo-Electron Microscopy

 
https://www.gla.ac.uk/schools/molecularbiosciences/staff/pauladafonseca/

 

School of Molecular Biosciences

351 Jarrett Building, Garscube Campus

University of Glasgow

Glasgow G61 1QH

UK

 

+44 (0) 141 330 7357



 




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] Protein purification position - Glasgow

[Mads Gabrielsen]

We seek an experienced Technician to support the Protein sciences  within
the Institute of Infection, Immunity and Inflammation, as well as the wider
community within the College of Medicinal, Veterinary and Life Sciences at
the University of Glasgow. 

Please find full details listed here (Reference 091208), University of
Glasgow - Explore - Jobs at Glasgow <https://www.gla.ac.uk/explore/jobs/> . 

 

For any questions or enquiries, please contact Prof Rick Maizels (
rick.maiz...@glasgow.ac.uk <mailto:rick.maiz...@glasgow.ac.uk> ) directly. 

 

Cheers,

 

Mads

 

Mads Gabrielsen MSc PhD  (He/Him)

Research Technologist

MVLS Structural Biology and Biophysical Characterisation Facility

 

Room B4-13

Joseph Black Building

University of Glasgow

G12 8QQ

 

+44 141 330 6447

 

mads.gabriel...@glasgow.ac.uk <mailto:mads.gabriel...@glasgow.ac.uk> 

 

https://www.gla.ac.uk/researchinstitutes/biology/research/structuralbiologyb
iophysicalcharacterisationfacility/

 

 




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] Post-doc opportunity in Glasgow

[Mads Gabrielsen]

Dear all, 

 

Can I draw your attention to the following 3-year post-doc position at the
Centre for Virus Research in Glasgow. The project will involve a lot of
structural biology and biophysics using a wide range of techniques. 

 

https://www.nature.com/naturecareers/job/research-assistantassociate-univers
ity-of-glasgow-748618

 

For any questions, please contact Joe Grove (joe.gr...@glasgow.ac.uk
<mailto:joe.gr...@glasgow.ac.uk> ). Deadline is the 19th November.

 

Cheers, 

 

Mads 

 

Mads Gabrielsen MSc PhD  (He/Him)

Research Technologist

MVLS Structural Biology and Biophysical Characterisation Facility

 

Room B4-13

Joseph Black Building

University of Glasgow

G12 8QQ

 

+44 141 330 6447

 

mads.gabriel...@glasgow.ac.uk <mailto:mads.gabriel...@glasgow.ac.uk> 

 

https://www.gla.ac.uk/researchinstitutes/biology/research/structuralbiologyb
iophysicalcharacterisationfacility/

 

 




To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

[ccp4bb] Post-doc opportunity - Structural biology of AdhE spirosomes

[Mads Gabrielsen]

I would like to draw your attention to the position below.
Please contact Andrew Roe or Olwyn Byron if interested.

RE: 3-year BBSRC funded project, University of Glasgow, Scotland, UK.
 
Post-doctoral project with Profs Olwyn Byron and Andrew Roe
A new twist on drug design: AdhE spirosomes as cross species anti-virulence
targets 

In our quest to develop new compounds to block a range of infections we have
been studying a bacterial protein called AdhE. AdhE is important because
when it is deleted from pathogenic E. coli (str. O157:H7) it causes an
attenuation of virulence and a reduction in expression of the major system
used to attach to host cells. AdhE oligomerises in vivo and in vitro to form
long (15-120 nm) filaments, called spirosomes, that can be visualised using
electron microscopy. These are assumed to be an important aspect of the
enzymatic efficiency of the protein. Importantly we have solved the
high-resolution structure of the protein and identified lead compounds that
bind and inhibit spirosome formation. However, there are several outstanding
questions that we propose to address, thereby enhancing our understanding of
how AdhE spirosomes work. This basic knowledge will help us to translate our
work in the longer-term and to develop specific inhibitors that might
function against a range of Gram-negative pathogens. Specifically, we seek
answers to the following questions:
 
1.  Why are AdhE spirosomes formed and how is this regulated?
2.  Do AdhE spirosomes channel substrates?
3.  Where is the binding site for the lead compounds?
4.  Does AdhE influence expression of T3SSs in other species?
 
To address these questions we will use SAXS, AUC (University of Glasgow) and
molecular dynamics simulations (in collaboration with Prof Syma Khalid
(University of Southampton)). We will also aim to determine where compounds
bind on spirosomes by performing cryo-EM studies in collaboration with Prof
Ji-Joon Song (KAIST, Korea). To widen our understanding of the relevance for
other pathogens, we will generate adhE deletions in other Gram-negative
species and perform virulence-based assays with each pathogen.
 
The work requires a motivated protein biochemist/structural biologist who is
keen to take on an exciting project. Informal enquiries to Olwyn or Andrew:
 
olwyn.by...@glasgow.ac.uk <mailto:olwyn.by...@glasgow.ac.uk> and
andrew@glasgow.ac.uk <mailto:andrew@glasgow.ac.uk>
 

Mads Gabrielsen, MSc, PhD
Protein Crystallographer / Biophysicist
MVLS Structural Biology and Biophysical Characterisation Facility

Room B4-13
Joseph Black Building
University of Glasgow
GLASGOW
G12 8QQ
UK

+44 141 330 6447

mads.gabriel...@glasgow.gla.ac.uk





To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1

This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list 
hosted by www.jiscmail.ac.uk, terms & conditions are available at 
https://www.jiscmail.ac.uk/policyandsecurity/

Re: [ccp4bb] Efficient way of showing residue conservation

[Mads Gabrielsen]

I believe Charlie Bond's ALINE
(http://crystal.bcs.uwa.edu.au/px/charlie/software/aline/) will let you
make a nicely coloured sequence alignement, and then write out a Pymol
script which will colour the surface by conservation.

Mads
-- 
Mads Gabrielsen, PhD
Institute of Infection, Immunology and Inflammation
College of Medical, Veterinary and Life Sciences
University of Glasgow

Room B216 /L303
GBRC
120 University place
G12 8TA


Phone: 0141 3307264 / 6180

E-mail: mads.gabriel...@glasgow.ac.uk





On 08/12/2011 05:26, "Yuri Pompeu"  wrote:

>I once saw a figure showing the protein as surface, but instead of having
>it coloured by atom type
>or potential, it was shown by percent conservation in the family.
>Something like red highly conserved, all the way to white, not conserved
>at all...
>Now, I assume the figure was done by uploading aligned sequnces of
>several members of a family, and the colouring
>the generated surface accordingly.
>Does anyone know a way to do this more elegantly than what I tried doing?
>ps. I quit colouring them manually after I remebered my protein was 407
>aa long...

[ccp4bb] Problem installing CCP4 on MacOSX behind firewall?

[Mads Gabrielsen]

I have a problem installing CCP4 on a MacOSX 10.6.4.

When I follow the procedure on Bill Scott's web-pages to install the 
precompiled version, I get an error message saying

Err http://sage.ucsc.edu stable/main Packages
403 Forbidden

When trying to install it via the normal Fink way, I get

curl (56) FTP response reading failed
###execution of curl failed, exit code 56
Downloading the file "ccp4-6.1.13-core-src.tar.gz" failed.

I think there is an issue with our firewall, but apart from setting the 
http_proxy to what has been suggested by our IT services I don't really know 
how to proceed.

Does anyone have any suggestions?

I know I can download the disk images from the ccp4 pages, but I would like to 
understand what is going wrong.


Cheers,

Mads

[ccp4bb] CCP4 Northern Protein Structure workshop 'Carla 2009'

[Mads Gabrielsen]

Hello all and apologies for the cross posting and to non-UK residents for
the cluttering of their inboxes.


Just to let you know that we will be holding the popular Northern
universities CCP4-sponsored protein structure workshop again this September
(see advert below). This year it will again be in sunny Carlisle, which has
proved a successful alternative traditional Galashiels venue where no-one is
clear on what is going to happen.

I'd be grateful if you could also bring this advert to the attention of
anybody else who may be interested and is not on my current mailing list,
please (let me have their e-mail address as well if they don't mind).


An updated web page with registration details will appear soon at
http://www.chem.gla.ac.uk/protein/gala

Thanks

Mads Gabrielsen
(On behalf of the organizing committee)

#
ANNOUNCING THE 16TH CCP4 PROTEIN STRUCTURE WORKSHOP 2nd - 4th Sept 2009 at
St Martin's College in Carlisle

This is the first announcement of the annual meeting for crystallographers
and interested structural biologists from Northern UK laboratories to
present their latest research and hold a morning workshop on a special topic
of interest, all in a relatively informal atmosphere. This meeting has often
been known simply as "Galashiels" but will again return to last year's
successful venue in Carlisle.

This year the workshop will focus on "What next?" - after you have your
shiny new structure, then what?

Registrants are requested to provide a talk title (perhaps but not
necessarily related to the special topic) as the meeting will continue to
provide an invaluable opportunity for younger group members (PhD students
and postdocs) to present their work to a friendly external audience and pick
up useful tips.
Registrant costs will be subsidised by CCP4 and other external sponsors*.

*Interested commercial sponsors please contact the organisers for registrant
and exhibition costs.

Organising committee:
Dr Tina Howard - tina.how...@astrazeneca.com Dr Mads Gabrielsen -
m.gabriel...@bio.gla.ac.uk Prof Jim Naismith - j...@st-and.ac.uk Dr Richard
Pauptit - richard.paup...@astrazeneca.com


Mads Gabrielsen, MSc, PhD
Post-doctorial Research Associate
Microbiology, Division of Infection and Immunity
FBLS, University of Glasgow

B216
GBRC
120 University Place
G12 8TA

Phone: 01413308119
E-mail: m.gabriel...@bio.gla.ac.uk, mg...@chem.gla.ac.uk

[ccp4bb] finicky protein

[Mads Gabrielsen]

I am not a big fan of sonication. Try changing your way of disrupting the
cells.

I have compared sonication vs mechanical stress on several unrelated proteins,
and for me a good old french press wins every time. If you want to get all
modern and fancy, a cell disruptor gives similar results.

Cheers,

Mads Gabrielsen


[Hide Quoted Text]

On Mar 2, 2008, at 11:47 PM, Tim Gruene wrote:

Hi all

sorry, for offtopic query...

I am trying to purify my protein by Ni-NTA affinity chromatography.  After
sonication as i centrifuge bacterial lysate, soon after 10 min  whole
lysates
get precipitated during loading on the column and some time it remain
soluble too. if i get purified through the column without  precipitation,
it
gets precipitated during dialysis.
I have tried lot, by chnaging buffers, increasing salt or  deacreasing salt
or no salt at are helpless.
I do purifiaction in cold room.

can any one suggest some solution?

Thanks in advance.

NSH


-- 
Dr. Mads Gabrielsen

GBRC, B217
Division of Biochemistry and Molecular Biology
IBLS
University of GlasgowPhone Office: 01413308119
G12 8QQ  Phone Lab: 01413306449
UK   E-mail: [EMAIL PROTECTED]


This message was sent using IMP, the Internet Messaging Program.