[ccp4bb] PostDoc and PhD cryoEM positions SciLife lab Stockholm

2022-02-10 Thread Bernhard Rupp 
Hi Fellows, 

 

please let me bring to your attention a PostDoc and PhD candidate position
at Marta Carroni’s cryoEM facility at the Scilife lab in Stockholm:

 

I am excited to announce that I am looking for a highly self-motivated
postdoctoral scientist and an enthusiastic PhD candidate to join my
newly-born research group at SciLifeLab in the Department of Biochemistry
and Biophysics (DBB) at Stockholm University (Sweden). The positions will be
funded by the Knut and Alice Wallenberg Foundation and DBB-Stockholm
University for a period of 5 years for the postdoctoral position and 4 years
for the PhD position. The team will together investigate the regulation of
AAA+ chaperones both in bacteria and in humans primarily using cryo-EM as a
tool, complemented with biochemistry and fluorescence imaging. 

The postdoctoral candidate should ideally come equipped with sound
experience in protein purification and protein structure determination using
single particle cryo-EM. Additional experience in cryo-electron tomography
and sub-tomogram averaging or knowledge in x-ray crystallography, NMR
spectroscopy and model building or prediction is a plus. 

The PhD student should have a background in Biology, Biochemistry,
Biophysics or similar, and be curious and interested to learn! Do you have a
background in another STEM field but are motivated to learn to use cryo-EM
as a tool to explore protein complexes? Still get in touch with me.

The team will work closely with members of the Cryo-EM Facility at
SciLifeLab ( 
https://www.scilifelab.se/units/cryo-em/, Stockholm, Sweden) and will have
access to two Titan Krios (equipped with Gatan Bioquantum-K3 cameras and
CetaD for electron diffraction), one Talos Arctica (Falcon 3 and K2) and a
powerful GPU computer cluster. 

SciLifeLab offers access to a number of other facilities such as
super-resolution fluorescence microscopy, compound screening, NMR and
structural mass spectrometry offering numerous possibilities to learn,
explore cutting edge techniques, and to collaborate with different experts.

If you are interested in joining this young team and for any informal
enquiry, please contact me at  
marta.carr...@scilifelab.se by March 15, 2022.  

Cheers, Marta


Marta Carroni,





Cell and Molecular Imaging Platform Director, SciLifeLab

Head of Unit, SciLifeLab CryoEM Facility
Dept. Biochemistry & Biophysics, Stockholm University
Tomtebodavägen 23 A, gamma2 
17165, Solna
Sweden
Tel +468161013
Tel +46720181462

 

--

Bernhard Rupp

k.k. Hofkristallamt

  http://www.hofkristallamt.org/

  b...@hofkristallamt.org

+1 925 209 7429

--

Institute of Genetic Epidemiology

Medical University Innsbruck

Schöpfstr. 41

A 6020 Innsbruck

  bernhard.r...@i-med.ac.at

+43 676 571 0536

--

Many plausible ideas vanish 

at the presence of thought

--

 




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[ccp4bb] CBMS Lecture Series - February 16, 2022 - 13:30 New York time zone

2022-02-10 Thread Stojanoff, Vivian 

You are cordially invited to join  the Center for Biomolecular Structure 
Lecture Series ………..





Jochen Hub

Universität des Saarlandes



WEDNESDAY, February 16, 13:30 (EST)





"Structure and ensemble refinement against SWAXS data with explicit-solvent MD 
simulations"



Register in advance for this meeting:


 https://bnl.zoomgov.com/meeting/register/vJItc-yvqj4uG9ryjG2Se_JF3fZh5MJQgQc



Abstract:

Small-angle and wide-angle X-ray scattering in solution (SAXS, WAXS, SWAXS) is 
an increasingly accurate method for obtaining structural information on 
biomolecules and soft-matter complexes in solution. However, the interpretation 
of the solution scattering data by computational methods is complicated by (i) 
the low information content of the data and (ii) by scattering contributions 
from the hydration layer and excluded solvent, leading to a significant risk of 
over interpretation upon fitting structural models against SWAXS data.To 
overcome such problems, we have developed methods for interpreting SWAXS data 
with all-atom explicit-solvent molecular dynamics (MD) simulations. In this 
talk we show how  MD simulations aid the interpretation of SWAXS data in 
multiple manners: The physical information in atomistic force fields 
complements the low information SWAXS data; explicit-solvent MD is used to 
predict solvent scattering contributions, and the MD-related sampling methods 
may guide the structure refinement against SWAXS data.


==



Vivian Stojanoff, PhD

Education, Training, Outreach

User Program

p 1(631) 344 8375

e nsls.lifescien...@gmail.com

w https://www.bnl.gov/ps/lifesciences/



Address:

Center for Biomolecular Structure

National Synchrotron Light Source II

Building 745

Brookhaven National Laboratory

Upton NY 11973




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[ccp4bb] British Biophysical Society Biennial meeting 2022

2022-02-10 Thread Dave Scott 
We are pleased to announce that the British Biophysical Society Biennial 
meeting 2022 will go ahead in person at the University of Galway between the 
29th of June and 1st of July.

The theme of the meeting will be "From Molecular Machines to Materials" and 
sessions will cover:

Functional nanostructures
Membrane Biophysics
Structural Biology
Soft Matter
Systems Biology 


Registration and program details can be found at:
https://nuigalwayschoolofchemistry.clr.events/event/132006



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Re: [ccp4bb] PDBe deposition issues

2022-02-10 Thread Sameer Velankar 
Dear Oliver,

Thank you for your message and apologies for the issues you have been 
encountering. As you mention, we are aware of issues with the deposition server 
at PDBe. Unfortunately, the solution is not clear-cut as the issues are 
sporadic and are affected by multiple different processes and infrastructure.

We are working hard with the EBI Systems team to try and resolve the issues and 
once again offer our apologies for the inconvenience.

We will be contacting you off-line to see if we can address the immediate issue.

Kind Regards,

Sameer Velankar

Protein data Bank in Europe

> On 10 Feb 2022, at 10:54, Weiergräber, Oliver H. 
>  wrote:
> 
> Dear all,
> 
> we have been experiencing severe issues with OneDep on the PDBe server(s) for 
> about four weeks now (starting 11 Jan).
> Specifically, deposition sessions are randomly interrupted by "internal 
> server errors".
> 
> The PDB is certainly aware of the problem, but it is unclear when the server 
> will be back to stable operation (and why it is taking so long to fix things).
> Does anyone have reliable (first-hand) information? Could PDB staff maybe 
> comment on this?
> 
> I was thinking about "simply" using the US sever as a workaround -- but this 
> would require indicating a matching location for generation of the deposition 
> ID (even if I'm actually located in Europe).
> Would this be expected to work?
> 
> Best regards
> Oliver
> 
> ==
>  PD Dr. Oliver H. Weiergräber
>  Institut für Biologische Informationsprozesse
>  IBI-7: Strukturbiochemie
>  Forschungszentrum Jülich
>  52425 Jülich, Germany
>  Tel.: +49 2461 61-2028
>  Fax: +49 2461 61-9540
> ==
> 
> 
> 
> 
> Forschungszentrum Juelich GmbH
> 52425 Juelich
> Sitz der Gesellschaft: Juelich
> Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498
> Vorsitzender des Aufsichtsrats: MinDir Volker Rieke
> Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender),
> Karsten Beneke (stellv. Vorsitzender), Prof. Dr. Astrid Lambrecht,
> Prof. Dr. Frauke Melchior
> 
> 
> 
> 
> 
> To unsubscribe from the CCP4BB list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1
> 
> This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing 
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[ccp4bb] PDBe deposition issues

2022-02-10 Thread Weiergräber , Oliver H . 
Dear all,

we have been experiencing severe issues with OneDep on the PDBe server(s) for 
about four weeks now (starting 11 Jan).
Specifically, deposition sessions are randomly interrupted by "internal server 
errors".

The PDB is certainly aware of the problem, but it is unclear when the server 
will be back to stable operation (and why it is taking so long to fix things).
Does anyone have reliable (first-hand) information? Could PDB staff maybe 
comment on this?

I was thinking about "simply" using the US sever as a workaround -- but this 
would require indicating a matching location for generation of the deposition 
ID (even if I'm actually located in Europe).
Would this be expected to work?

Best regards
Oliver

==
  PD Dr. Oliver H. Weiergräber
  Institut für Biologische Informationsprozesse
  IBI-7: Strukturbiochemie
  Forschungszentrum Jülich
  52425 Jülich, Germany
  Tel.: +49 2461 61-2028
  Fax: +49 2461 61-9540
==




Forschungszentrum Juelich GmbH
52425 Juelich
Sitz der Gesellschaft: Juelich
Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498
Vorsitzender des Aufsichtsrats: MinDir Volker Rieke
Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender),
Karsten Beneke (stellv. Vorsitzender), Prof. Dr. Astrid Lambrecht,
Prof. Dr. Frauke Melchior





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[ccp4bb] SLS MX User Meeting 2022

2022-02-10 Thread Olieric Vincent (PSI) 

Registration is open for the SLS MX user meeting 2022:
https://indico.psi.ch/e/MXuserMeeting

The event will take place online (Zoom) on the 1st of March 1pm-5pm CET time.

Deadline for registration: 22 February 2022

We will update you on the SLS 2.0 project and associated MX beamline upgrades. 
We will present our current activities through general talks, live demos and 
users cases presentations.

The meeting follows an independent event: the SLS 2.0 User Information Workshop 
for the SLS 2.0 upgrade program (https://indico.psi.ch/event/11625/), which 
requires a separate registration.

Best regards,

Vincent Olieric on behalf of the MX Group at SLS





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