The Real-time Dynamics and Biophysics of Single

3 maanden geleden

Amsterdam Oost, Nederland AMOLF Voltijd

**Work Activities**:
**Questions -** According to textbooks, ribosomes work individually to produce proteins. However, recent insights from our lab and others show multiple ribosomes cooperate as they translate mRNA. This cooperation may well be essential to produce multi-protein complexes faithfully. In our group, we aim to elucidate the highly diverse and broad implications. Questions include: Do ribosomes synchronize their translation activity in real-time, like a sequence of cars in traffic? Are mRNA secondary structures and/or direct interactions between ribosomes involved? How do the two (or more) protein chains synthesized by these multiple ribosomes fold together to form protein complexes? How many ribosomes cooperate together? Can we see cooperation between ribosomes that translate different RNA messages? Given the novelty of these fundamental questions in this rapidly expanding field, you will have a unique chance to address them first.

**Approach -** You will directly follow the unknown dynamics of ribosome translation, protein folding and assembly, and chaperone guidance. This is enabled using optical tweezers combined with single-molecule fluorescence, which detect changes in individual molecules at nanometer and millisecond resolution. Direct collaboration with our partners provides complementary genome-wide _in-vivo_ data. This first look may reveal a host of unexpected phenomena. You will develop new experimental schemes, Use cutting-edge single-molecule fluorescence and manipulation methods, Adapt existing biochemical protocols, Analyze the complex temporal data, formulation of new models, And explain your findings in high-level scientific papers.

**International team -** You will be part of a collaboration with leading groups at Heidelberg University and the ETH in Zurich, which use novel sequencing and cryo-EM methods. By working within this motivated group of young scientists, you will obtain a unique training, understanding and skill set in this expanding field. By integrating these approaches, you will provide insights of unprecedented detail, spanning from the cellular to the atomic level, from _in vivo_ to _in vitro_, from genome-wide patterns to molecular mechanisms, and from bacteria to human cells.

Image left show ribosome (blue, orange) that synthesized protein chain (yellow) by translating the RNA message (red). Image right shows dynamic ribosome interactions.

**Qualifications**:
We have a number of positions available (PhD and PD). We are looking for outstanding experimental physicists or chemists with an interest in single-molecule techniques, ambition to make breakthrough findings, programming skills to handle complex data, and who thrive in a diverse, collaborative, and supportive environment. Excellent verbal and written English skills are essential. You meet the requirements for an MSc-degree to ensure eligibility for a Dutch PhD examination.

**Work environment**:
**Our group -** We form a lively and close-knit research group of about 10 PhD students and postdocs, which work together in small teams on various projects in a highly supportive and social atmosphere that extends to the other research groups at the AMOLF institute, which is housed in a modern building in the east of Amsterdam. The Tans group at the AMOLF institute Amsterdam has been at the forefront of studying chaperone-guided protein folding using optical tweezers. This technique allows one to mechanically manipulate individual proteins, and hence follow the movements and folding steps as they fold. We have shown striking sequences of molecular events that underlie chaperone functions, which are invisible with other methods.

**Working conditions**:

- The working atmosphere at the institute is largely determined by young, enthusiastic, mostly foreign employees. Communication is informal and runs through short lines of communication.
- The position is intended as full-time (40 hours / week, 12 months / year) appointment in the service of the Netherlands Foundation of Scientific Research Institutes (NWO-I) for the duration of four years
- The starting salary is 2.781 Euro’s gross per month and a range of employment benefits.
- After successful completion of the PhD research a PhD degree will be granted at Delft University of Technology.
- Several courses are offered, specially developed for PhD-students.
- Funding is available to attend regularly international conferences.

**More information?**:
For further information about the position, please contact

Prof. dr. ir. Sander Tans
Phone: +31-(0)20-754 7100

**Application**:
You can respond to this vacancy online via the button below.

Please annex your:

- Resume;
- Motivation on why you want to join the group (max. 1 page).

Applications will be evaluated on a rolling basis and as soon as an excellent match is made, the position will be filled.
- Online screening may be part of the selection._

**Diversity code**:
AMOLF has won the NNV Diversity Award

  • The Single-molecule Dynamics and Biophysics of The

    3 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **The single-molecule dynamics and biophysics of the ubiquitin motor Cdc48/p97**: **Work Activities**: **Questions -** Ubiquitin is central to a broadly important regulatory system within cells, which controls anything from protein degradation to membrane remodeling and DNA replication regulation. Cdc48 performs these tasks by disassembling protein...

  • Phd Student: The Real-time Dynamics of Single

    3 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **PhD student: The real-time dynamics of single ribosomes**: **Work Activities**: **Questions -** According to textbooks, ribosomes work individually to produce proteins. However, recent insights from our lab and others show multiple ribosomes cooperate as they translate mRNA. This cooperation may well be essential to produce multi-protein complexes...

  • Postdoc: The Real-time Dynamics of Single Ribosomes

    3 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Postdoc: The real-time dynamics of single ribosomes**: **Work Activities**: **Questions -** According to textbooks, ribosomes work individually to produce proteins. However, recent insights from our lab and others show multiple ribosomes cooperate as they translate mRNA. This cooperation may well be essential to produce multi-protein complexes faithfully....

  • The Single-molecule Dynamics and Biophysics of The

    3 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Work Activities**: **Questions -** Ubiquitin is central to a broadly important regulatory system within cells, which controls anything from protein degradation to membrane remodeling and DNA replication regulation. Cdc48 performs these tasks by disassembling protein complexes, extracting proteins from membranes, unfolding misfolded proteins, and by...

  • Phd Student: Single-molecule Biophysics of The

    3 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **PhD student: Single-molecule biophysics of the ubiquitin motor Cdc48/p97**: **Work Activities**: **Questions -** Ubiquitin is central to a broadly important regulatory system within cells, which controls anything from protein degradation to membrane remodeling and DNA replication regulation. Cdc48 performs these tasks by disassembling protein complexes,...

  • Phd in Biophysics: Single-cell Tracking in Organoids

    2 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **PhD in biophysics: Single-cell Tracking in Organoids**: **Work Activities**: **Summary -** In this project, you will use advanced 3D imaging and AI-driven cell tracking to reveal the remarkable self-organization of cells within intestinal organoids. Using a biophysics approach, you will study how stem cells move, grow, divide, and differentiate into...

  • Postdoc: Discovering Car T Cell Biophysics with

    2 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Postdoc: Discovering CAR T cell biophysics with single-molecule TIRF microscopy**: **Work Activities**: Notably, a complex spatio-temporal dynamics is thought to be central to CAR T cell activation, but is difficult to measure and hence remains poorly understood. That the activation relies on the movement and association of many receptors and accesory...

  • Phd in Biophysics: Single-cell Tracking in Organoids

    2 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Work Activities**: **Summary -** In this project, you will use advanced 3D imaging and AI-driven cell tracking to reveal the remarkable self-organization of cells within intestinal organoids. Using a biophysics approach, you will study how stem cells move, grow, divide, and differentiate into specific functional cell types, and hence reveal how functional...

  • Postdoc in Biophysics: Single-cell Tracking in Organoids

    1 maand geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Work Activities**: **Summary -** In this project, you will use advanced 3D imaging and AI-driven cell tracking to reveal the remarkable self-organization of cells within intestinal organoids. Using a biophysics approach, you will study how stem cells move, grow, divide, and differentiate into specific functional cell types, and hence reveal how functional...

  • Phd in Biophysics: Chaperone-guided Formation of

    8 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **PhD in Biophysics: Chaperone-guided formation of single protein complexes**: **Work Activities**: Do you want to discover how multi-protein assemblies are produced without error? The aim of this project is to reveal this vital cellular process at the single-molecule level. Our research group has been at the vanguard of studying chaperone-protein...

  • Postdoc: Chaperone-guided Formation of Single

    8 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Postdoc: Chaperone-guided formation of single protein complexes**: **Work Activities**: Do you want to discover how multi-protein assemblies are produced without error? The aim of this project is to reveal this vital cellular process at the single-molecule level. Our research group has been at the vanguard of studying chaperone-protein interactions using...

  • Postdoc: Chaperone-guided Formation of Single

    7 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Work Activities**: Do you want to discover how multi-protein assemblies are produced without error? The aim of this project is to reveal this vital cellular process at the single-molecule level. Our research group has been at the vanguard of studying chaperone-protein interactions using optical tweezers, which allows one to follow the movements and folding...

  • Postdoc: Discovering Car T Cell Biophysics with

    2 maanden geleden

    Amsterdam Oost, Nederland AMOLF Voltijd

    **Work Activities**: Notably, a complex spatio-temporal dynamics is thought to be central to CAR T cell activation, but is difficult to measure and hence remains poorly understood. That the activation relies on the movement and association of many receptors and accesory proteins in an orchestrated manner is a fascinating notion. By addressing this question...

  • Phd in Mechanical Characterization of Nucleic Acids

    2 maanden geleden

    Amsterdam Zuid, Nederland Vrije Universiteit Amsterdam Voltijd

    **Your function**: Within the context of the EU-funded Marie Skłodowska Curie Doctoral Network (DN) “MeChaNiSM” there are 15 fully funded open positions for PhD students in the field of nucleic acids chemistry and biophysics. One of those position is at the Vrije Universiteit Amsterdam. You will get the opportunity to: - be supervised by an expert in...

  • Two Phd Positions in Molecular Simulation of

    1 maand geleden

    Amsterdam, Nederland Universiteit van Amsterdam Voltijd

    Two PhD Positions in Molecular Simulation of Nucleic Acids in the Marie Curie Network MeChaNiSM **Faculty/Services**:Faculty of Science**Educational level**:Master**Function type**:PhD position**Closing date**:01.02.2025**Vacancy number**:13566- Are you interested in the chemistry of DNA and do you enjoy working in an international and interdisciplinary...

  • Part-time Analyst

    7 maanden geleden

    Amsterdam, Nederland PATRIZIA AG Voltijd

    **PATRIZIA** ist ein führendes Unternehmen für weltweite Investments in Real Assets. Die Expertise und das Engagement unserer globalen Teams bilden die Basis unseres Erfolgs. Eine nachhaltige Zukunft zu gestalten und einen positiven Beitrag für die Gesellschaft zu leisten, treiben uns an. **WE ARE LOOKING FOR YOU TO JOIN PGP’s INTERNATIONAL REAL...

  • Corporate Real Estate Lead

    4 weken geleden

    Amsterdam Oost, Nederland Equinix Voltijd

    **Who are we?** Equinix is the world’s digital infrastructure company®, operating over 260 data centers across the globe. Digital leaders harness Equinix's trusted platform to bring together and interconnect foundational infrastructure at software speed. Equinix enables organizations to access all the right places, partners and possibilities to scale...

  • Senior Real Estate Legal Expert

    3 weken geleden

    Amsterdam, Noord-Holland, Nederland The Social Hub Voltijd

    As a highly skilled Senior Real Estate Legal Expert, you will play a pivotal role in supporting the growth and success of The Social Hub (TSH) across Europe. Located in several countries including The Netherlands, Germany, Austria, Italy, France, Spain, and the UK, with new openings on the horizon, this is an exceptional opportunity to work with a dynamic,...

  • Postdoc Bioinformatics in

    3 maanden geleden

    Utrecht Oost, Nederland Prinses Máxima Centrum Voltijd

    We are seeking a highly motivated, self-driven postdoctoral researcher in bioinformatics to the Kool group at the Princess Máxima Center for pediatric oncology. Our group studies the genomics and epigenomics of pediatric brain tumors and how to translate findings from these studies into novel therapies. Do you want to contribute to the Princess Máxima...

  • Phd in Developing Single-photon Emitters From 2d

    5 maanden geleden

    Amsterdam, Nederland Universiteit van Amsterdam Voltijd

    PhD in Developing Single-photon Emitters from 2D Semiconductors for Quantum Photonic Applications **Faculteit/Dienst**:Faculteit der Natuurw., Wiskunde & Informatica**Opleidingsniveau**:Master**Functie type**:Promotieplaats**Sluitingsdatum**:15 October 2024**Vacaturenummer**:13369**What are you going to do?** - Aim of the PhD project is to develop...