PhD Student (f/m/d) – Microtubule nanomechanics and turnover under cell-like physical constraints –

Quellbild anzeigen

The Max Planck Institute for Multidisciplinary Sciences is a leading international research institute of
exceptional scientific breadth. With more than 40 research groups and some 1,000 employees from over
50 nations, it is the largest institute of the Max Planck Society.
The Department of Theoretical and Computational Biophysics is inviting applications for a
PhD Student (f/m/d)
– Microtubule nanomechanics and turnover under cell-like physical constraints –
supervised by Dr. Maxim Igaev. The three-year PhD project involves massively parallel, atomistic and
coarse-grained modeling to study the dynamic and mechanic properties of microtubule filaments subject
to external forces by space constraints or other cellular factors.
Your profile
Eligible candidates have strong basic skills in either or all of the following disciplines: computational
(bio)physics, structural biology, statistical mechanics, and scientific computing. They hold (or expect
to complete soon) a Master’s or equivalent degree in any of these or a related field. A keen interest in
interdisciplinary research and collaboration with experimental groups is preferable.
What we offer
 A wide range of offers to help you balance work and family life: on-campus kindergarten places
including vacation care, parent-child offices, etc.;
 Further training opportunities and free in-house language courses;
 Spacious campus cafeteria with a wide range of meals (including vegan/vegetarian ones);
 Health management: free fitness and yoga rooms, sports groups, "active break" courses;
 Initiatives for sustainability and a green environment with a new biotope.
The group language is English, so no German language skills are required – but it is a great opportunity
for you to learn German!
Position Details
Payment and benefits based on the German Public Service (TVöD Bund) guidelines. The starting date
is flexible.
The Max Planck Society is committed to increasing the number of individuals with disabilities in its
workforce and, therefore, encourages applications from such qualified individuals. The
Max Planck Society strives for diversity and gender equality and welcomes applications from all
backgrounds.
Application
Applications will be reviewed on a rolling basis until the position is filled.
Please submit your application including a cover letter (explaining background and motivation), a CV
(with a publication list, if applicable), and transcripts (translated in English or German, if applicable)
preferably via e-mail and as a single PDF file to: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!
Max Planck Institute for Multidisciplinary Sciences
Department of Theoretical and Computational Biophysics
Dr. Maxim Igaev
Am Faßberg 11
37077 Göttingen
Germany
Web: https://www.mpinat.mpg.de/grubmueller/microtubules
Information pursuant to Article 13 DS-GVO on the collection and processing of personal data during
the application process can be found on our website below the respective job advertisement

PhD Position in Experimental Molecular Biophysics

Applications are invited for a PhD position in the research group of Professor Karin Hauser at the University of Konstanz. The project is dedicated to study protein folding dynamics by time-resolved infrared (IR) spectroscopy. In particular, a homebuilt IR spectrometer with a laser-excited temperature-jump will be used to monitor submillisecond structural dynamics. Focus of the project is the understanding of molecular mechanisms in the stabilization of protein structures. Model peptides with novel site-specific infrared probes will be applied to analyze structural dynamics on the basis of individual amino acids, thereby exploring backbone and side-chain dynamics separately.
We are looking for a highly motivated student who has successfully completed a master in (bio)physics or chemistry. The ideal candidate should have experience in spectroscopic techniques or laser spectroscopy or optics. Interest in biophysical research and interdisciplinary work is expected. Further requirements are the ability to work independently and in a team, as well as good English language proficiency.
The position is integrated in the Collaborative Research Center 969 “Chemical and Biological Principles of Cellular Proteostasis” (A2) and immediately available. Interested candidates should send their application (including motivation letter, CV, brief summary of master thesis, certificates) by e-mail to Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

Related publications:
Scheerer, D., Chi, H., McElheny, D., Keiderling, T., Hauser, K. "Enhanced sensitivity to local dynamics in peptides by use of temperature-jump IR-spectroscopy and isotope labeling", Chem Eur J, 2020, 26, 3524-3534
Siu, H., Heck, B., Kovermann, M., Hauser, K. "Template-assisted design of monomeric polyQ models to unravel the unique role of glutamine side chains in disease-related aggregation", Chemical Science 2020, DOI: 10.1039/D0SC05299J
Popp, A., Scheerer, D., Heck, B., Hauser, K. "Biomolecular dynamics studied with IRspectroscopy using quantum cascade lasers combined with nanosecond perturbation techniques", Spectrochim Acta A Mol Biomol Spectrosc, 2017, 181, 192–199

Further information: www.biophysik.uni-konstanz.de

Max Planck Institute for Multidisciplinary Sciences, Postdoc Position in Computational Biophysics (f/m/d)

Quellbild anzeigen

Postdoc Position in Computational Biophysics (f/m/d)

Job Code: 31-22

Job Offer from May 27, 2022

The Max Planck Institute for Multidisciplinary Sciences is a leading international research institute of exceptional scientific breadth. With more than 40 research groups and some 1,000 employees from over 50 nations, it is the largest institute of the Max Planck Society.

The research group for Computational Biomolecular Dynamics (Prof. Dr. Bert de Groot) is inviting applications for a

Postdoc Position (f/m/d)

– Development and application of alchemical free energy calculation methods -
for protein design, resistance prediction and ligand-protein binding free energies

Your profile

The successful candidate has a keen interest and strong skills in computational molecular physics, structural biology, statistical mechanics, and scientific computing, a strong interest in interdisciplinary research and collaboration with experimental groups. You hold a PhD or equivalent degree in any of these or a related field.

What we offer

  • state of the art on site compute facilities
  • a team of 30+ expert colleagues
  • a family friendly, green campus with on-site kindergarten
  • ample training opportunities

Position details

The position is limited to two years with a possibility of extension. Payment and benefits are based on the German Public Service Payscale (TVöD Bund) guidelines. The starting date is flexible.

The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. The Max Planck Society strives for gender and diversity equality. We welcome applications from all backgrounds.

Application

Applications will be reviewed on a rolling basis until the position is filled.

Please submit your application including cover letter (explaining background and motivation), CV, transcripts, and publication record, preferably via E-Mail as a single PDF file to

Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

Max Planck Institute for Multidisciplinary Sciences
Research Group 
Computational Biomolecular Dynamics
Prof. Dr. Bert de Groot
Am Faßberg 11
37077 Göttingen
Germany

PhD Position in Biophysical Chemistry

Applications are invited for a PhD position in the research group of Professor Karin Hauser at the University of Konstanz. The project is dedicated to study molecular interaction mechanisms with infrared spectroscopy. We established an ATR-FTIR spectroscopic approach to study aggregation pathways of polyglutamine (polyQ) proteins by the controlled initiation of the aggregation process facilitating the structural characterization of intermediates in dependence of time. Expanded glutamine repeats are found in many neurodegenerative diseases, but molecular mechanisms leading to disease-related aggregates or preventing aggregation are not well understood. Focus of the project is the further development of the infrared spectroscopic approach and the analysis of molecular interactions between polyQ repeats and chaperones. PolyQ aggregation kinetics and pathways shall be analyzed in the presence of chaperones to get insights into molecular mechanisms of chaperone function. Applications are invited for a PhD position in the research group of Professor Karin Hauser at the University of Konstanz. The project is dedicated to study molecular interaction mechanisms with infrared spectroscopy. We established an ATR-FTIR spectroscopic approach to study aggregation pathways of polyglutamine (polyQ) proteins by the controlled initiation of the aggregation process facilitating the structural characterization of intermediates in dependence of time. Expanded glutamine repeats are found in many neurodegenerative diseases, but molecular mechanisms leading to disease-related aggregates or preventing aggregation are not well understood. Focus of the project is the further development of the infrared spectroscopic approach and the analysis of molecular interactions between polyQ repeats and chaperones. PolyQ aggregation kinetics and pathways shall be analyzed in the presence of chaperones to get insights into molecular mechanisms of chaperone function.

We are looking for a highly motivated student who has successfully completed a master in (bio)chemistry, (bio)physics, life science or biology. The ideal candidate should have a strong interest in spectroscopy and biophysical research. Further requirements are the ability to work independently and in a team, as well as good English language proficiency.

The position is integrated in the Collaborative Research Center 969 “Chemical and Biological Principles of Cellular Proteostasis” (A2) and immediately available.Interested candidates should send their application (including motivation letter, CV, brief summary of master thesis, certificates) by e-mail to Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! publications:
Yushchenko, T., Deuerling, E., Hauser, K. "Insights into the aggregation mechanism of polyQ proteins with different glutamine repeat lengths", Biophys. J., 2018, 114, 1847-1857
Krüger, A., Bürkle, A., Hauser, K.*, Mangerich, A.* "Real-time monitoring of PARP1-dependent PARylation by ATR-FTIR spectroscopy", Nat. Commun 2020, 11, 2174

Further information: www.biophysik.uni-konstanz.de
Distributed: 1.12.2020

PhD position (m/f/d) in Experimental Molecular Biophysics of Protein Misfolding in Neurodegenerative Diseases (65% TV-L E13, 36 month).

Logo der Freien Universität Berlin

PhD position (m/f/d) in Experimental Molecular Biophysics of Protein Misfolding in Neurodegenerative Diseases (65% TV-L E13, 36 month).

The Kozuch group investigates the function of biomedically relevant (membrane) proteins with a special focus on electrostatic interactions that shape the formation of functional motifs. The methodological approach is based on a combination of (nanoscopic) vibrational spectroscopy supplemented by the use of model membrane systems, biochemical methods and computer-aided simulations. After completing his doctoral thesis in biophysical chemistry at the Technical University of Berlin, Dr. Jacek Kozuch did research as a postdoc at Stanford University (USA) and is now a junior research group leader within Experimental Molecular Biophysics at Freie Universität Berlin.

This DFG-funded project aims to research how specific interactions with membranes for folding or misfolding of, e.g., β-amyloid or islet amyloid polypeptide can lead to neurodegenerative diseases. For this purpose, surface-enhanced (SEIRAS) and AFM-based nano-infrared spectroscopy (nanoIR) in combination with model membrane systems will be used to track folding trajectories and control them through various boundary conditions.

We offer:

  • the opportunity for a PhD within the stimulating, interdisciplinary and

  international environment of Freie Universität Berlin,

  • the entry into fascinating and biomedically relevant topics of molecular

  Biophysics,

  • the use and further development of modern vibrational spectroscopic methods.

Requirements and Qualifications

Completed scientific university studies (diploma, master) in physics, chemistry, biophysics, biochemistry or in one of the related natural sciences.

We are looking for candidates with:

Experience with vibrational spectroscopic methods and/or atomic force microscopy; handling biological samples (e.g., proteins); willingness to work in an interdisciplinary environment; friendly and communicative demeanor; ability to work in a team; structured and independent work; knowledge of English; fun and fascination with science, especially in the field of molecular biophysics.

The area of ​​responsibility includes:

  • the independent conduction of this scientific project,
  • the biochemical preparation of protein/peptide samples and the construction of

  membrane model systems,

  • the implementation of nanoscopic and surface-enhanced infrared spectroscopy

  measurements,

  • participation in international conferences.

Selection process

Please contact Dr. Jacek Kozuch if more information is required (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! / +49 (0)30 838 64888) or visit the FU Berlin homepage: https://www.fu-berlin.de/universitaet/beruf-karriere/jobs/wiss/20_fb-physik/PH-KO5464-5.html

Applications (including cover letter, CV, certificates, one letter of recommendation as a single PDF) should be sent electronically by e-mail to Dr. Jacek Kozuch: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!">Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!.

PhD Position in Super-resolution RNA Imaging

Topic
Genetically encodable fluorescence markers for imaging of specific RNA molecules in live  cells are still very limited. Within the project ‘Super‐resolution RNA Imaging with Aptamer‐ PAINT’, funded by the Baden‐Württemberg Stiftung (collaboration with the Jäschke lab,  IPMB, U Heidelberg), we develop advanced light‐up RNA aptamers for live‐cell super‐ resolution localization microscopy  applications. 

Candidate
We are looking for an excellent, highly motivated person with a degree in (bio)physics,  physical chemistry or related fields who is interested in working in an interdisciplinary team and who is strongly committed to careful biophysical experimentation (single molecule imaging) and computer‐based quantitative data acquisition and analysis. 

Contact
Prof. Dr. Gerd Ulrich Nienhaus (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!) Institute of Applied Physics, KIT, 76131 Karlsruhe

References
Wirth, R.; Gao, P., Nienhaus, G. U., Sunbul, M. and A. Jäschke. 
SiRA: A Silicon Rhodamine‐ Binding Aptamer for Live‐Cell Super‐Resolution RNA Imaging. J. Am. Chem. Soc. 141, 7562  (2019)

Sunbul, M., Lackner, J., Martin, A., Englert, D., Hacene, B., Grün, 
F., Nienhaus, K., Nienhaus,  G. U., & A. Jäschke. Super‐resolution RNA imaging using a rhodamine‐binding aptamer with  fast exchange kinetics.  Nature Biotechnol., in press. 

http://www.aph.kit.edu/nienhaus/

POSTDOCTORAL POSITION IN PROTEIN STRUCTURAL DYNAMICS AND FOLDING USING HDX-MS

 
The Laboratory of Molecular Bacteriology, Rega Institute, Department of Microbiology, Immunology and Transplantation, KU Leuven (https://rega.kuleuven.be/bac/economou) wishes to recruit a postdoctoral fellow in the following projects: a. Protein folding and chaperone interactions. b. Structural dynamics of membrane associated/embedded channels and motors. The lab studies protein trafficking through the Sec and the Type III secretion systems (Krishnamurty 2022 CellReports; Krishnamurty 2021 Structure; Yuan 2021 JMolBiol; Portaliou 2018 EMBO J; Saio
 2014 Science 344; Gouridis 2013 Mol Cell 52; Chen 2011 Mol Cell 44; Gouridis 2009 Nature 462; Gelis 2007
 Cell 131) and disordered/flexible human proteins involved in disease and chaperoning (e.g. Bcl-2 and IP3-regulated Ca2+ channel, prolyl oligopeptidase, endophilin; Rosa 2021 CellDeathDifferentiation; Tsirigotaki 2017 SciReports). In the process we develop HDX-MS-related methods (Smit 2021 Analytical Chemistry; Claesen 2021 Analytical Chemistry). We have a very international lab environment and use multi-disciplinary approaches that combine Hydrogen Deuterium Exchange/Native/nanoLC mass spectrometries and single molecule FRET as core tools with molecular microbiology and genetics, recombinant DNA technologies, enzymology, protein chemistry, protein biophysics (including Isothermal Titration Calorimetry, Circular Dichroism, ensemble fluorescence, size exclusion chromatography coupled online to static and dynamic laser light scattering detection). All methods are applicable on available lab equipment. Our lab Waters Synapt G2 MS is equipped with a nanoAcquity UPLC and HDX capabilities. We also have direct access to two Orbitraps: a Q-exactive and an Elite. We use MassLynx, PLGS, DynamiX and in-house developed software like PyHDX.
Responsibilities

Research at postdoctoral level using HDX-MS and related techniques and flows

Profile

Successful candidates should:

·       hold a BSc/PhD in Chemistry or Biochemistry or Physics or a related degree.

·       have experience in using HDX-MS and/or native MS or other MS methods.

·       be experienced in protein purification and biochemistry.

·       have a genuine interest in research and scientific discovery and particularly in protein structural dynamics, protein interactions and folding.

·       Additional experience in biophysical methods and/or bioinformatics will be appreciated. 

·       have a good command of English.

 Offer

The position is available immediately. 

Applications ahould include: 

a) complete CV, 

b) list of scientific publications, 

c) short summary of performed research project(s),

d) detailed hands-on experience with MS instruments and 

e) names and contact details of 2-3 referees, should be sent to: Prof. Tassos Economou (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!, subject: HDX_2022_LMB).

Interested?
For more information please contact Mrs. Lily Karamanou, tel.: +32 16 37 92 08, mail: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! or Prof. dr. Tassos Economou, tel.: +32 16 37 92 73, mail: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!.
You can apply for this job no later than December 15, 2022 via the online application tool

KU Leuven seeks to foster an environment where all talents can flourish, regardless of gender, age, cultural background, nationality or impairments. If you have any questions relating to accessibility or support, please contact us at Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!.

Postdoc at lino Biotech AG in Zurich

Position: Postdoc at lino Biotech AG in Zurich

Description: This postdoctoral project represents an excellent opportunity to perform innovative research in industry and academia. It evolved from fundamental research at Roche and ETH Zurich and is now commercialized by the technology spin-off lino Biotech AG. The position is part of a postdoctoral research collaboration between Roche and lino Biotech in order to bring this technology to the next level: a potential application in a clinical setting. The project is supervised by lino Biotech, Roche, as well as Prof. Janos Vörös from the ETH Zurich. The majority of the work will be done at lino Biotech in Zurich while some research also will be performed at Roche in Basel. In this research, you will concentrate on site-directed surface immobilization of proteins; study and characterize the binding of ligands with the immobilized proteins and develop a multiplexed antibody platform for the diagnosis and treatment monitoring of neurogenerative diseases in clinical relevant body fluids. You will also have the chance to communicate your results to the scientific community and to work in a supportive, highly collaborative, and energetic environment. The position is funded for a two years period. The place of employment is Zurich. Background: You are someone who wants to influence your own development. You are looking for an environment where you have the opportunity to pursue your interests across functions and geographies. Where a job title is not considered the final definition of who you are, but the starting point.

For this position, you will need a PhD degree in science (biochemistry, chemistry, biology, systems biology, biomedical engineering, or related areas) and bring several of the following qualifications: Skills: ● Advanced knowledge of experimental surface chemistry (i.e. polymer chemistry, protein modification and immobilization) ● Experience in bioorthogonal coupling chemistries ● Experience with label-free technologies (e.g. SPR, BLI), biological assay development and the corresponding data processing ● Strong knowledge of interaction analysis, analysis of -omics data and multiplex sensor arrays and relevant statistical background to apply to these areas ● An outstanding track record documenting relevant experience in these areas; accustomed to work in an interdisciplinary team; good interpersonal skills/ability to build good working relation; excellent English skills ● Optional: ability to write small scripts and automate data processing and workflows in a suitable programming language ● Optional: Experienced in working under biosafety level 2 We look forward to receiving your application including a letter of motivation, CV, list of publications and contact details of your referees.

 

Contact Person: Dr. Volker Gatterdam, Alliance Manager Email: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

PhD position (m/f/d) in Molecular Biophysics of Antibiotic Resistance (65% TV-L E13, 36 month).

Logo der Freien Universität Berlin

PhD position (m/f/d) in Molecular Biophysics of Antibiotic Resistance (65% TV-L E13, 36 month).

The Kozuch group investigates the function of (membrane) proteins that are relevant for the evolution of antimicrobial resistance. Particular attention is paid to how electrostatic interactions shape the formation of functional motifs. The methodological approach is based on a combination of vibrational spectroscopy and computer-aided simulations supplemented by the use of model membrane systems and biochemical methods. Dr. Jacek Kozuch completed his doctoral thesis in biophysical chemistry at the Technical University of Berlin, then did research as a postdoc at Stanford University (USA) and is now a junior research group leader within Experimental Molecular Biophysics at the Freie Universität Berlin.

This DFG-funded project aims to research how physical/non-covalent interactions in proteins contribute to the evolution of antibacterial resistance. By combining theoretical and experimental approaches, methods of computer-assisted vibrational spectroscopy will be developed in order to understand clinically relevant evolutionary trajectories.

Relevant publications:

https://pubs.acs.org/doi/abs/10.1021/acs.jpcb.1c00578

https://pubs.acs.org/doi/abs/10.1021/acscentsci.1c00880

We offer:

  • the opportunity to conduct a doctorate within the stimulating, interdisciplinary and international environment of Freie Universität Berlin,
  • the entry into fascinating and biomedically relevant topics of molecular biophysics,
  • the development of modern, experimental and computer-aided vibrational spectroscopy.

Requirements and Qualifications

Completed scientific university studies (diploma, master) in physics, chemistry, biophysics, bioinformatics or in one of the related natural sciences.

We are looking for candidates with:

Experience with molecular dynamics simulations and/or vibrational spectroscopy; Knowledge and enjoyment in coding with Python; Willingness to work in an interdisciplinary environment; friendly and communicative demeanor; ability to work in a team; structured and independent work; knowledge of English; Fun and fascination with science, especially in the field of molecular biophysics.

The area of ​​responsibility includes:

  • the independent processing of this scientific project,
  • the implementation of molecular dynamics simulations of biomolecules in particular,
  • infrared spectroscopic measurements in external electric fields (vibrational Stark spectroscopy),
  • willingness to participate in international conferences,
  • the opportunity for a doctorate is given as part of the third-party funded research project.

Selection process

Please contact Dr. Jacek Kozuch if more information is required (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! / +49 (0)30 838 64888) or visit the FU Berlin homepage: https://www.fu-berlin.de/universitaet/beruf-karriere/jobs/wiss/20_fb-physik/PH-DFG-KO5464-4-1.html

Applications should be sent electronically until Feb. 28, 2022, indicating the reference code DFG-KO5464/4-1, (preferably as one PDF) to Dr. Jacek Kozuch: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!.