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Structural Biology |
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Our lab aims to understand biological processes by looking at the structures of macromolecular complexes; to that end our predominant tool and expertise is in X-ray crystallography (MX) - actually a team integrated to the lab is at the forefront of developing methods for X-ray crystallography - but we also use Small Angle X-ray Scattering (SAXS), Nuclear Magnetic Resonance (NMR) and Electron Microscopy (EM). We complement our structural data with an array of biochemical methods and biophysical techniques, including Surface Plasmon Resonance (SPR), Isothermal Titration Calorimetry (ITC) and Multiple Angle Laser Light Scattering (MALLS).
Our main interests include DNA replication licensing and how that is regulated throughout the cell cycle, and the role of Polo-like kinases and their partners in cell cycle. We also have an active interest in the structure of Autotaxin and JBP1 on proteins which are exciting drug targets.
More scientific data are available in the
NKI research reports.
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Computational macromolecular crystallography |
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ARP/wARP (in collaboration with the group of V. Lamzin at EMBL Hamburg), is a software suite that aims to automate building of macromolecular models to the electron density maps that are available after every X-ray crystallography
experiment. A combination of empirical knowledge of protein structure, pattern recognition, linear combinatorics and image processing algorithms together with real and reciprocal space crystallographic refinement techniques are exploited for that purpose.
Future research plans, which are focused around the 'Structural genomics' initiatives, include the development of algorithms to facilitate model building at low-resolution maps, completion of partially known structures and design of better protocols for the end-users.
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Publications |
- A. Perrakis previous publication record
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| Previous Lab Members |
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Oliver Weichenrieder (Senior Post-doc)
Junior Group Leader, MPI Tubingen
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Kostas Repanas (Pre-doctoral fellow)
Freelance scientist, Madrid
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Cristiane Toaldo (Research Technician)
Technician, Tumor Biology, NKI
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Marouane Ben Jelloul (Software Engineer)
Developer at MEDIT
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Koen Verschueren (Post-doc)
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Rebecca Persson (Post-doc)
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Mattheos Kakaris (Software Engineer)
Project Manager, Eurodynamics |
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Mobien Kasiem (Research Technician)
Diagnostic Oncology, NKI
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Diederick de Vries (Database Programmer)
Developer, Ministry of Justice |
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Suzan van Gerwen (Research Technician)
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Angelina Huseinovic (Research Technician)
Technician, AMT |
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Patrick Celie (Post Doc)
Protein Facility Manager, NKI |
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Evangelos Christodoulou (Research Technician)
Protein Facility manager, NIMR London |
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Valeria De Marco (Post-doc)
Post-doc, NIMR London |
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Wijnand Mooij (Post Doc)
Scientist, Tessela, NL |
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Serge Cohen (Post-doc)
Research Scientist, Soleil Synchrotron, France |
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