Wiktor Koźmiński's NMR group

Biological and Chemical Research Centre, University of Warsaw

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Anna Zawadzka-Kazimierczuk

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Scientific interests:

Methodology of acquisition, processing and analysis of multidimensional NMR spectra of biomolecules. Pulse sequence design and programming. Strategies for sequence-specific resonance assignment.

Publications:

  1. Amino acid recognition for automatic resonance assignment of intrinsically disordered proteins, A. Piai, L. Gonnelli, I. C. Felli, R. Pierattelli, K. Kazimierczuk, K. Grudziąż, W. Koźmiński, A. Zawadzka-Kazimierczuk, W. Koźmiński, J. Biomol. NMR, Article in Press.
  2. 1H, 15N, 13C resonance assignment of human GAP43, A. G. Flamm, S. Żerko, A. Zawadzka-Kazimierczuk, W. Koźmiński, R. Konrat, N. Coudevylle Biomol. NMR Assign. Article in Press.
  3. 13C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing, P. Dziekański, K. Grudziąż, W. Koźmiński, A. Zawadzka-Kazimierczuk J. Biomol. NMR , 62, 179-190, (2015) .
  4. "CON-CON" assignment strategy for highly flexible intrinsically disordered proteins, A. Piai, T. Hošek, L. Gonnelli, A. Zawadzka-Kazimierczuk, W. Koźmiński, B. Brutscher, W. Bermel, R. Pierattelli, I. C. Felli J. Biomol. NMR, 60, 209-218, (2014).
  5. High-Dimensional NMR Spectra for Structural Studies of Biomolecules, K. Kazimierczuk, J. Stanek, A. Zawadzka-Kazimierczuk, W. Koźmiński. ChemPhysChem, 14, 3015-3025, (2013).
  6. High-dimensionality 13C direct-detected NMR experiments for the automatic assignment of intrinsically disordered proteins, W. Bermel, I.C. Felli, L. Gonelli, W. Koźmiński, A. Piai, R. Pierattelli, A. Zawadzka-Kazimierczuk, J. Biomol. NMR, 57, 353-361, (2013).
  7. Protonation-dependent conformational variability of intrinsically disordered proteins, L. Geist, M.A. Henen, S. Haiderer, T.C. Schwarz, D. Kurzbach, A. Zawadzka-Kazimierczuk, S. Saxena, S. Żerko, W. Koźmiński, D. Hinderberger, R. Konrat, Protein Science, 22(9), 1196-1205 (2013).
  8. 1H, 13C and 15N resonance assignments of human BASP1 L. Geist, A. Zawadzka-Kazimierczuk, S. Saxena, S. Żerko, W. Koźmiński, R. Konrat, Biomol. NMR Assign., 7(2), 315-319, (2013).
  9. TSAR: A program for automatic resonance assignment using 2D cross-sections of high dimensionality, high-resolution spectra A. Zawadzka-Kazimierczuk, W. Koźmiński, M. Billeter J. Biomol. NMR, 54, 81-95, (2012).
  10. High dimensional and high resolution pulse sequences for backbone resonance assignment of intrinsically disordered proteins A. Zawadzka-Kazimierczuk, W. Koźmiński, H. Šanderová, L. Krásný J. Biomol. NMR, 52, 329-337, (2012).
  11. 1H, 13C, and 15N chemical shifts assignments for human endothelial monocyte-activating polypeptide EMAP II D. Lozhko, J. Stanek, K. Kazimierczuk., A. Zawadzka-Kazimierczuk, W. Koźminski, I. Zhukov, A. Kornelyuk Biomol. NMR Assign., 7, 25-29, (2013).
  12. Generalized Fourier transform for non-uniform sampled data. K. Kazimierczuk, M, Misiak, J. Stanek, A. Zawadzka-Kazimierczuk, W. Koźmiński, Topics in Current Chemistry, 316, 79-124 (2012).
  13. 5D 13C detected experiments for backbone assignment of unstructured proteins with a very low signal dispersion. J. Nováček, A. Zawadzka-Kazimierczuk, V. Papoušková, L. Žídek, H. Šanderová, L. Krásný, W. Koźmiński, V. Sklenář, J. Biomol. NMR, 50, 1-11 (2011).
  14. Strategy for complete NMR assignment of disordered proteins with highly repetitive sequences based on resolution-enhanced 5D experiments, V. Motáčková, J. Nováček, A. Zawadzka-Kazimierczuk, K. Kazimierczuk, L. Žídek, H. Šanderová, L. Krásný, W. Koźmiński, V. Sklenář, J. Biomol. NMR, 48, 169-177 (2010).
  15. Non-uniform frequency domain for optimal exploitation of non-uniform sampling. K. Kazimierczuk, A. Zawadzka-Kazimierczuk, W. Koźmiński, J. Magn. Reson., 205, 286–292 (2010).
  16. A set of 4D NMR experiments of enhanced resolution for easy resonance assignment in proteins, A. Zawadzka-Kazimierczuk, K. Kazimierczuk, W. Koźmiński, J. Magn. Reson., 202, 109-116 (2010).
  17. Random sampling in multidimensional NMR spectroscopy. K. Kazimierczuk, J. Stanek, A. Zawadzka-Kazimierczuk, W. Koźmiński, Prog. Nucl. Mag. Res. Sp., 57,420–434 (2010).
  18. Narrow peaks and high dimensionalities: exploiting the advantages of random sampling. K. Kazimierczuk, A. Zawadzka, W. Koźmiński, J. Magn. Reson., 197, 219-228 (2009).
  19. Determination of spin-spin couplings from ultra high resolution 3D NMR spectra obtained by optimized random sampling and Multidimensional Fourier Transformation. K. Kazimierczuk, A. Zawadzka, W. Koźmiński, I. Zhukov, J. Am. Chem. Soc., 130, 5404-5405 (2008).
  20. Optimization of random time domain sampling in multidimensional NMR. K. Kazimierczuk, A. Zawadzka, W. Koźmiński, J. Magn. Reson. 192, 123-130 (2008).
  21. Lineshapes and Artifacts in Multidimensional Fourier Transform of Arbitrary Sampled NMR Data Sets, K. Kazimierczuk, A. Zawadzka, W. Koźmiński, I. Zhukov, J. Magn. Reson., 188, 344-356 (2007).
  22. Progress in structural studies of proteins by NMR spectroscopy. K. Kazimierczuk, M. Misiak, A. Zawadzka, W. Koźmiński, Polimery, 52, 736-744 (2007).
  23. Random sampling of evolution time space and Fourier transform processing. K. Kazimierczuk, A. Zawadzka, W. Koźmiński, I. Zhukov, J. Biomol. NMR, 36, 157-168 (2006).

Academic career:

2013, Jan. 1st - ... Assistant position at the Faculty of Chemistry of the University of Warsaw
2012, Oct. 3rd Ph.D. in physical chemistry from the Faculty of Chemistry of the University of Warsaw, thesis entitled: “New methods of protein NMR spectra analysis using the techniques of high dimensionality” (diploma with honours)
2010 - 2011 14-months stay at the Chemistry Department of the University of Gothenburg, at prof. Martin Billeter’s lab (within the International PhD Studies programme)
2007 - 2012 PhD studies at the Faculty of Chemistry of the University of Warsaw (from 2009 within the International PhD Projects Programme of the Foundation for Polish Science)
2007, Feb.1st M.Sc. in physics from the Faculty of Physics of the University of Warsaw, thesis entitled: “Random sampling of the evolution time space in three-dimensional NMR experiments” (diploma with honours)
2001 - 2007 graduate studies at the Faculty of Physics of the University of Warsaw, specialization: Biophysic

Grants:

  1. Parent/Bridge Programme ("Pomost"), Foundation for Polish ScienceNovel 13C-detected NMR techniques for resonance assignment of intrinsically disordered proteins ”, 326,600 PLN, 2013-2015
  2. Iuventus Plus, Polish Ministry of Science and Higher Education, "Automatyczne przypisywanie sygnałów w widmach NMR białek niezwiniętych" ("Automatic resonance assignment in NMR spectra of intrinsically disordered proteins"), 254,800 PLN, 2013-2016

Teaching experience:

Laboratory of Physics, Proseminar on Physics
Laboratory of Molecular Spectroscopy
Specialization Laboratories in NMR spectroscopy

Teaching at NMR courses and workshops:

2.06.2008, Szkoła spektroskopii NMR, Łódź, Poland

27.07- 2.08.2008, NANUC NMR BootCamp, Farmington, USA

3-28.05.2010, Fundamentals of Protein NMR, A hands-on PhD course on protein NMR, Goteborg, Sweden

20-23.09.2010, Advanced Course on New Methods of Data Acquisition and Analysis in Biomolecular NMR, Goteborg, Sweden

17-28.01.2011, Advanced Protein NMR, A hands-on PhD course on advanced NMR techniques, Goteborg, Sweden

27-30.06.2011, Bio-NMR User Training Course „Acquisition and processing of sparsely sampled NMR data ”, Warsaw, Poland

22.08.2012, Setting up new NMR experiments - BioNMR workshop at the XXV ICMRBS, Lyon, France

20-23.11.2012, Course on biomolecular NMR with Non-Uniform Sampling, Goteborg, Sweden

Awards and stipends:

2007 Award for the best poster ("Multidimensional Fourier Transform of randomly sampled NMR data") during Ampere NMR school in Bukowina Tatrzańska, Poland
2009 Award for the best oral presentation ("A set of 4D NMR experiments of enhanced resolution for easy resonance assignment in proteins") during 5th symposium on Nuclear Magnetic Resonance in Chemistry, Physics and Biological Sciences in Warsaw, Poland
2009 Antoni Grabowski Award for developing of new methods of acquisition and analysis of NMR spectra of proteins
2009 Mazowian Ph. D. Scholarship by the Marshal of the Mazovia province
2009 Scientific stipend within the frame of „The Modern University – a comprehensive support programme for doctoral students and teaching staff of the University of Warsaw”
2013

START stipend for young researchers, Foundation for Polish Science

2013

Award of the Polish Prime Minister for the honored PhD thesis







 

 






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