[ccp4bb] postdoctoral position in microtubule structural biology at the NIH

[Antonina Roll-Mecak]

Dear colleagues,


There is an opening in my lab to study the structure and mechanism of
microtubule regulators with an emphasis on the tubulin code. The formal
announcement is pasted below.


Thanks,

Antonina



*Cell Biology and Biophysics Unit, National Institutes of Health, Bethesda,
USA*

A postdoctoral fellowship opportunity is available in the Cell Biology and
Biophysics Unit headed by Dr. Antonina Roll-Mecak to work on structural and
functional studies of tubulin modification enzymes and molecular motors
using a combination of X-ray crystallography, cryo-EM and single molecule
fluorescence microscopy. Research in the Roll-Mecak lab focuses on
deciphering the tubulin code ie how tubulin posttranslational modifications
tune microtubule functions (see for instance Garnham et al., *Cell* 2015,
Valenstein et al., *Cell* 2016, Vemu et al., *JBC* 2016; Zehr et al *Nature
Struct & Molec Biology, *2017). We use a combination of biochemistry, X-ray
crystallography, electron microscopy and single-molecule fluorescence
techniques. For more information about the lab please visit:
https://neuroscience.nih.gov/ninds/rm_lab/



I am looking for enthusiastic, self-motivated Ph.D. graduates with a strong
publication record and expertise in molecular biology, biochemistry, X-ray
crystallography or electron microscopy who welcome working in an
interdisciplinary group with a supportive atmosphere and excellent
resources. The Washington DC area is a great place to live with great
access to cultural and outdoor activities. Experience with assembly of
large protein complexes or structure determination by crystallographic
methods or EM is a definite plus. The successful applicant will be awarded
a NINDS Intramural Fellowship.  Please send a CV, a one-page research
experience summary and contact information of three references to
anton...@mail.nih.gov  Please write “Fellow - tubulin code” in the subject
header.




-- 


Antonina Roll-Mecak

Senior Investigator and Chief

Cell Biology and Biophysics Unit

Porter Neuroscience Research Center

NINDS and NHLBI

National Institutes of Health



Administrative contact: Karen Kendrick; Ph: 301-451-9223; Email:
karen.kendr...@nih.gov 

Lab website: https://neuroscience.nih.gov/ninds/RM_Lab/

[ccp4bb] Postdoctoral position in membrane protein structure and function at the NIH

[Anirban Banerjee]

There is an open postdoctoral position for a membrane protein
structure-function project in my lab at the NIH. We are currently focusing
on integral membrane enzymes (Science. 2018,  doi: 10.1126/science.aao6326)
and transporters of transition metal ions (J Biol Chem. 2018, doi:
10.1074/jbc.M117.817478).


Here is the formal announcement -

EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN
DEVELOPMENT, BETHESDA, MD AND SURROUNDING AREA

Position Description:
The research group of Dr. Anirban Banerjee at the National Institutes of
Health (NIH) is seeking candidates for postdoctoral fellows . The broad
interests of the lab are in membrane protein structure and function. We
combine structural techniques such as macromolecular crystallography and
cryo EM with biophysical and biochemical methods such as reconstitution
based assays, high resolution light microscopy and small molecule screening
to investigate the structural bases of the mechanisms of a number of
membrane proteins.

The lab has state-of-the-art equipment and facilities. We have dedicated
periodic access to the 22-ID beamline at the APS, for crystallographers at
the NIH, as well as access to 23-ID and 24-ID beam lines at the APS. Our
laboratory is part of the Cell Biology and Neurobiology Branch in the
Eunice Kennedy Shriver National Institute of Child Health and Human
Development (NICHD). We also have an affiliation to the National Institute
of Neurological Disorders and Stroke (NINDS).

Qualifications:
The candidates should hold a Ph. D. degree, be author of at least one first
author publication and have a strong background in biochemistry or
structural biology. Experience with basic molecular biology, protein
expression, purification and biochemical characterization are required.
Prior experience in membrane protein biochemistry or mammalian expression
system for protein purification will be added advantages.

It is absolutely essential the candidate is motivated and prepared to put
in the best efforts for fruition of the project goals. We are a small,
friendly lab and ability to work as part of a cohesive group is important.

To Apply:
Interested candidates can send an e-mail to anirban.baner...@nih.gov with a
CV and a summary of previous research experience and future interests.

The NIH is dedicated to building a diverse community in its training and
employment programs.

[ccp4bb] Associate Staff Scientist / Lab Manager Position at LCLS, Menlo Park, California

[Hunter, Mark Steven]

Dear Colleagues,

LCLS, SLAC National Accelerator Laboratory in Menlo Park, CA has a posting for 
a new Associate Staff Scientist / Lab Manager position that can be found here: 
https://chk.tbe.taleo.net/chk01/ats/careers/requisition.jsp?org=SLAC&cws=1&rid=3149
 and will be open for approximately one more week.  Below you can find the text 
of the posting.


Cheers

Mark



Associate Staff Scientist/Laboratory Services Manager [Arrillaga Science Center 
Biological Lab]


Job Requisition #:


3149


Classification Title:


Staff Scientist- Associate


Grade:


Location:


Menlo Park, CA (HQ)


# of openings:


1






Description


POSITION OVERVIEW:

The Linac Coherent Light Source (LCLS), a Directorate of the SLAC National 
Accelerator Laboratory, seeks a laboratory manager to support laboratory 
activities in both our newly established Arrillaga Science Center Biological 
Laboratory and our existing x-ray science user facility, and to carry out 
independent scientific research. This position reports to the LCLS Hard X-Ray 
Department manager and is matrixed to the LCLS Environment, Safety and Health 
Program Manager.

Laboratory Services Management Duties:

  *   Work closely with internal LCLS groups to support and facilitate both the 
Arrillaga Science Center, Bioscience Laboratories and LCLS User Facility Sample 
Preparation Laboratories used by visiting and internal scientists (users), in 
activities that range from biophysics to biology, including inorganic, 
environmental and physical chemistry, helping them achieve their scientific 
goals.
  *   Provide laboratory and equipment scheduling and training, and introduce 
visiting and internal scientists to the Sample Preparation Laboratory policies, 
procedures, and resources, including laboratory access, assignment of space, 
chemical handling protocols, hazardous waste protocols and general 
instrumentation.
  *   Train new users on sample preparation and characterization methodology.
  *   Ensure adherence to applicable laboratory and research safety and 
operation policies, and will have authority to halt user activities.
  *   Assist with chemical safety review processes, maintain training records, 
chemical inventory, and equipment inventory databases, specialized lab 
equipment (i.e. water purification systems, inert atmosphere chambers, 
centrifuges, and spectrophotometers), chemicals, supplies, and beam line safety 
stations.
  *   Negotiate and monitor equipment service contracts and warranties with 
vendors.
  *   Determine equipment needs, authorize purchase of equipment, and oversee 
installation of equipment and instruments in collaboration with facilities 
services staff.
  *   Direct and coordinate preventative maintenance and repair of all 
equipment; determine proper method of repair.
  *   Oversee layout, allocation, and tracking of space among multiple labs; 
manage logistics of laboratory moves; implement plans for renovations of 
equipment and or/facilities in collaboration with facilities services staff.
  *   Administer and prepare budgets that include several funding sources.
  *   Administer health and safety programs and ensure safety compliance; act 
as resource on safety procedures; provide instruction on routine basis; liaise 
with school and/or university health and safety office as appropriate.
  *   Responsible managing the procurement of laboratory equipment, chemicals, 
supplies, and services from outside vendors. Assist visiting and internal 
scientists in chemical ordering processes.
  *   Work without supervision on evenings and weekends.

LCLS Facility Support Objectives:

  *   Provide direct support LCLS user experiments in sample preparation, 
handling and delivery at the LCLS beamlines.
  *   Work with LCLS scientists to assist in-house and external users with the 
planning and execution of LCLS experiments.
  *   Oversee experimental preparation and participate in experimental beamtime.
  *   Participate in projects to improve the capabilities and efficient 
operations laboratory and research facilities.

Research Objectives:

  *   Carry out basic research in sample preparation methods with an emphasis 
on structural biology techniques.
  *   Develop new research approaches to sample production, characterization, 
handling, and delivery for LCLS measurements
  *   Participate in scientific collaborations to develop ideas and 
capabilities Write proposals and publish original scientific research.
  *   Disseminate research results though peer reviewed publications and 
presentations at scientific meetings.

Note: The Associate Staff Scientist position is the entry level in the Staff 
Scientist career path.  The Associate Staff Scientist is a 3 to 5 year fixed 
term research staff position.  The second level of this career path, Staff 
Scientist is a regular continuing position.  The Associate position is 
scheduled to be assessed after the 3 to 5 year period with the possibili

Re: [ccp4bb] Native Patterson Plot

[Bernhard Rupp]

Yep, many thanks to all, below was the simplest solution (no offence to
CNS).
Cheers, BR

-Original Message-
From: Ethan A Merritt  
Sent: Tuesday, May 8, 2018 3:54 PM
To: b...@hofkristallamt.org
Subject: Re: [ccp4bb] Native Patterson Plot

On Tuesday, May 8, 2018 2:38:44 PM PDT you wrote:
> Hi Fellows/Developers,
> 
>  
> 
> I am trying to create a native Patterson map plot, but in ccp4i on 
> windows the PS plot file (*.plt) is mutilated
> 
> https://www.dropbox.com/s/f3cl2980qzws3gj/mono_15_1.plt?dl=0

That's not a postscript file.  It's a "plot84" file, whatever that means.
The ccp4 utility "pltdev" converts it to postscript with slightly incorrect
BoundingBox notations near the top of the file.  Edit or delete these and
you should be good to go.

Ethan

--
Ethan A Merritt
Biomolecular Structure Center,  K-428 Health Sciences Bldg
MS 357742,   University of Washington, Seattle 98195-7742

[ccp4bb] Two Post-Doctoral Positions (COFUND) available at IRB, Barcelona

[Pau Martin]

The Macias lab at IRB Barcelona is searching for two highly motivated
Structural Biologist PhD students to join our laboratory. Our research
interest is focused on deciphering the mechanisms that correlate cell
signaling with gene expression using high resolution structural biology. We
also aim at discovering how these mechanisms are regulated, and their
consequent implications in human diseases from the structural point of
view. Recently, our work has been focused on the family of transcription
factors Smads, where we have discovered a mechanism that labels these key
components of the TGF-beta pathway first for activation and then for
degradation. We have also identified new DNA binding sites specifically
recognized by Smad proteins.

Using NMR and X-ray crystallography we are currently characterizing the
interactions of Smad proteins and cofactors with DNA promoters, to provide
a first understanding of how these molecular machines work and to pave the
basis for the design of small molecular inhibitors specifically targeted
towards tumor-derived Smad forms.
Interested candidates should send a CV, a letter of motivation, and
academic grades to maria.mac...@irbbarcelona.org.

The fellowships are granted for 4 years including:
* Anual gross salary: 26.519,19€ plus a single payment of 1504,89
relocation support (Spanish tax and social security deductions apply),
* Close mentoring and supervision through prestigious Researchers,
* A personalized doctoral career development plan,
* A training program for scientific and transferable skills.

Conditions: 4 year contracts, fellows will have to comply with the EU
mobility rule (candidates must not have resided or carried out their main
activity in Spain for more than 12 months in the 3 years previous to the
call deadline), candidates should be ready to enter an official doctoral
programme in September 2018.

Deadline: 31 May 2018
Interviews: from 12 to 27 July 2018 (exact days to be confirmed)
Incorporation foreseen around 09/2018

For more information please visit http://maciasnmr.net/?q=node/32



-- 

Pau Martín Malpartida
Structural Characterization of Macromolecular Assemblies

Institute for Research in Biomedicine (IRB Barcelona),  The Barcelona
Institute of Science and Technology, Baldiri Reixac, 10, 08028 Barcelona,
Spain
Tel : +34 93 4037190 <934%2003%2071%2090>
http://www.maciasnmr.net
eMail: pau.mar...@irbbarcelona.org

[ccp4bb] European Crystallography Meeting Oviedo; Neutron Macromolecular Crystallography Satellite Meeting

[John R Helliwell]

Dear Colleagues,
We draw your attention to the following meeting in Oviedo, Spain in August:-
https://ecm31.ecanews.org/en/neutron-macromolecular-crystallography.php
Best wishes,
John and Matthew
Emeritus Professor John R Helliwell DSc;
Dr Matthew Blakeley, Institut Laue Langevin.

[ccp4bb] serious issue: truncate program

[Charles Ballard]

Dear All

we discovered a serious bug in TRUNCATE that results in incorrect sets
of amplitudes/sigmas. The problem was introduced at update 7.0.039.  
The effect is a complete lack of amplitudes with F/SIGF values within
(roughly) the 10-20 range. It can easily be detected by plotting a
histogram of F/SIGF values from any MTZ file.

A fix will be in the next update.

Charles

[ccp4bb] AW: [ccp4bb] Native Patterson Plot

[Herman . Schreuder]

Hi Bernard,

I found a script I made a long time ago which produces a native Patterson. I 
tested it with our reasonable recent CCP4 version and it still works!

You have to copy the attached script to your linux directory and make it 
executable (type chmod +rwx makpat).
To generate a patterson e.g. from myfile.mtz, you type makpat myfile
It will generate a Patterson map , a postscript file and a log file with a 
peaklist.

Good luck!
Herman


Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Bernhard 
Rupp
Gesendet: Dienstag, 8. Mai 2018 23:39
An: CCP4BB@JISCMAIL.AC.UK
Betreff: [EXTERNAL] [ccp4bb] Native Patterson Plot

Hi Fellows/Developers,

I am trying to create a native Patterson map plot, but in ccp4i on windows the 
PS plot file (*.plt) is mutilated
https://www.dropbox.com/s/f3cl2980qzws3gj/mono_15_1.plt?dl=0
(wrong orientation & partly off paper) when viewed in ghostview. I vaguely 
recall these being mapslicer files,
but starting win ccp4i mapslicer from the interface entrails the attached error 
message.

Alternatively, does one know of another way of getting a quick native Patterson 
plot?
Neither phenix nor ccp4i2 seem to offer a job menu item..

Many thanks for your help.

Best, BR
--
Bernhard Rupp
http://www.hofkristallamt.org/
b...@hofkristallamt.org
+1 925 209 7429
+43 676 571 0536
--
Many plausible ideas vanish
at the presence of thought
--



makpat
Description: makpat