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- Vladislav Orekhov
Vladislav Orekhov
Professor
Institutionen för kemi och molekylärbiologiOm Vladislav Orekhov
Rapid progress in life sciences is mostly methodology driven. Nuclear Magnetic Resonance (NMR) is an actively developing biophysical technique that provides atomic-level information about spatial structure, dynamics, and interactions of key molecular components of a living cell. Our group is located at the Swedish NMR Centre, which is one of major NMR facilities in Scandinavia and Europe. Research in our group is focused in developing new NMR experiments as well as new approaches and algorithms for data collection and signal processing. ( See publications of the group at google scholar ) Current projects: • Novel methods of NMR signal processing: non-uniform sampling, compressed sensing, artificial intelligence & neural networks • Protein dynamics: folding, allostery, and other phenomena. • Intrinsically Disordered Proteins: structure, interactions, function
We always welcome motivated students and young researchers who like to make a project in our group.
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Insights into mechanisms of MALT1 allostery from NMR and AlphaFold dynamic
analyses
Johan Wallerstein, Xiao Han, Maria Levkovets, Dmitry Lesovoy, Daniel Malmodin, Claudio Mirabello, Bjoern Wallner, Renhua Sun, Tatyana Sandalova, Peter Agback, B Göran Karlsson, Adnane Achour, Tatiana Agback, Vladislav Orekhov
COMMUNICATIONS BIOLOGY - 2024 -
Data Processing Methods: Fourier and
Beyond
Vladislav Orekhov, Paweł Kasprzak, Krzysztof Kazimierczuk
Two-Dimensional (2D) NMR Methods - 2023 -
Hypercomplex Low Rank Reconstruction for NMR
Spectroscopy
Y. Guo, J. Zhan, Z. Tu, Y. Zhou, J. Wu, Q. Hong, Y. Huang, Vladislav Orekhov, X. Qu, D. Guo
Signal Processing - 2023 -
Combined NMR and molecular dynamics conformational filter identifies unambiguously dynamic ensembles of Dengue protease
NS2B/NS3pro
Tatiana Agback, Dmitry Lesovoy, Xiao Han, Alexander Lomzov, Renhua Sun, Tatyana Sandalova, Vladislav Orekhov, Adnane Achour, Peter Agback
COMMUNICATIONS BIOLOGY - 2023 -
Resolution enhancement of NMR by decoupling with the low-rank Hankel
model
Tianyu Qiu, Amir Jahangiri, X. Han, D. Lesovoy, T. Agback, P. Agback, A. Achour, X. B. Qu, Vladislav Orekhov
Chemical Communications - 2023 -
NMR spectrum reconstruction as a pattern recognition
problem
Amir Jahangiri, X. Han, D. Lesovoy, T. Agback, P. Agback, A. Achour, Vladislav Orekhov
Journal of Magnetic Resonance - 2023 -
A Sparse Model-Inspired Deep Thresholding Network for Exponential Signal Reconstruction--Application in Fast Biological
Spectroscopy
Z. Wang, D. Guo, Z. R. Tu, Y. H. Huang, Y. R. Zhou, J. Wang, L. B. Feng, D. H. Lin, Y. F. You, T. Agback, Vladislav Orekhov, X. B. Qu
IEEE Transactions on Neural Networks and Learning Systems - 2022 -
Exponential Signal Reconstruction With Deep Hankel Matrix
Factorization
Y. Huang, J. Zhao, Z. Wang, Vladislav Orekhov, D. Guo, X. Qu
IEEE Transactions on Neural Networks and Learning Systems - 2022 -
Assignment of IVL-Methyl side chain of the ligand-free monomeric human MALT1 paracaspase-IgL(3) domain in
solution
X. Han, Maria Levkovets, D. Lesovoy, R. H. Sun, Johan Wallerstein, T. Sandalova, T. Agback, A. Achour, P. Agback, Vladislav Orekhov
Biomolecular Nmr Assignments - 2022 -
H-1, C-13 and N-15 resonance assignment of backbone and IVL-methyl side chain of the S135A mutant NS3pro/NS2B protein of Dengue II virus reveals unique secondary structure features in
solution
P. Agback, D. M. Lesovoy, X. Han, R. H. Sun, T. Sandalova, T. Agback, A. Achour, Vladislav Orekhov
Biomolecular Nmr Assignments - 2022 -
Signaling Mechanism of Phytochromes in
Solution.
Linnéa Isaksson, Emil Gustavsson, Cecilia Persson, Ulrika Brath, Lidija Vrhovac, B Göran Karlsson, Vladislav Orekhov, Sebastian Westenhoff
Structure - 2021 -
NUScon: a community-driven platform for quantitative evaluation of nonuniform sampling in
NMR
Y. Pustovalova, F. Delaglio, D. L. Craft, H. Arthanari, A. Bax, Martin Billeter, M. J. Bostock, H. Dashti, D. F. Hansen, S. G. Hyberts, B. A. Johnson, K. Kazimierczuk, H. Lu, M. Maciejewski, T. M. Miljenović, M. Mobli, D. Nietlispach, Vladislav Orekhov, R. Powers, X. Qu, S. A. Robson, D. Rovnyak, G. Wagner, J. Ying, M. Zambrello, J. C. Hoch, D. L. Donoho, A. D. Schuyler
Magnetic Resonance - 2021 -
Unambiguous Tracking of Protein Phosphorylation by Fast High-Resolution FOSY
NMR**
D. M. Lesovoy, Panagiota S. Georgoulia, T. Diercks, Irena Matečko-Burmann, Björn Marcus Burmann, E. V. Bocharov, W. Bermel, Vladislav Orekhov
Angewandte Chemie-International Edition - 2021 -
Resolution enhancement in NMR spectra by deconvolution with compressed sensing
reconstruction
Krzysztof Kazimierczuk, Paweł Kasprzak, Panagiota S. Georgoulia, Irena Matečko-Burmann, Björn Marcus Burmann, Linnéa Isaksson, Emil Gustavsson, Sebastian Westenhoff, Vladislav Orekhov
Chemical Communications - 2020 -
Fast time-resolved NMR with non-uniform
sampling
D. Gołowicz, P. Kasprzak, Vladislav Orekhov, K. Kazimierczuk
Progress in Nuclear Magnetic Resonance Spectroscopy - 2020 -
A beta(1-42) tetramer and octamer structures reveal edge conductivity pores as a mechanism for membrane
damage
S. Ciudad, E. Puig, T. Botzanowski, M. Meigooni, A. S. Arango, J. Do, Maxim Mayzel, M. Bayoumi, S. Chaignepain, G. Maglia, S. Cianferani, Vladislav Orekhov, E. Tajkhorshid, B. Bardiaux, N. Carulla
Nature Communications - 2020 -
Modulation of Structural Heterogeneity Controls Phytochrome
Photoswitching
Emil Gustavsson, Linnéa Isaksson, Cecilia Persson, Maxim Mayzel, Ulrika Brath, Lidija Vrhovac, J. A. Ihalainen, B Göran Karlsson, Vladislav Orekhov, Sebastian Westenhoff
Biophysical Journal - 2020 -
Review and Prospect: Deep Learning in Nuclear Magnetic Resonance
Spectroscopy
D. C. Chen, Z. Wang, D. Guo, Vladislav Orekhov, X. B. Qu
Chemistry-a European Journal - 2020 -
Accelerated Nuclear Magnetic Resonance Spectroscopy with Deep
Learning.
Xiaobo Qu, Yihui Huang, Hengfa Lu, Tianyu Qiu, Di Guo, Tatiana Agback, Vladislav Orekhov, Zhong Chen
Angewandte Chemie - 2020 -
Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and
Archaea
Nina Kubatova, Dennis J. Pyper, Hendrik R.A. Jonker, Krishna Saxena, Laura Remmel, Christian Richter, Sabine Brantl, Elena Evguenieva-Hackenberg, Wolfgang R. Hess, Gabriele Klug, Anita Marchfelder, Jörg Soppa, Wolfgang Streit, Maxim Mayzel, Vladislav Orekhov, Monika Fuxreiter, Ruth A. Schmitz, Harald Schwalbe
ChemBioChem - 2020 -
Structural characterization and biological function of bivalent binding of CD2AP to intrinsically disordered domain of chikungunya virus nsP3
protein
P. Agback, F. Dominguez, Yulia Pustovalova, T. Lukash, N. Shiliaev, Vladislav Orekhov, I. Frolov, T. Agback, E. I. Frolova
Virology - 2019 -
XLSY: Extra-Large NMR
Spectroscopy.
Yulia Pustovalova, Maxim Mayzel, Vladislav Orekhov
Angewandte Chemie (International ed. in English) - 2018 -
High-fidelity spectroscopy reconstruction in accelerated
NMR.
Tianyu Qiu, Di Guo, Hengfa Lu, Jiaxi Ying, Ming Shen, Bingwen Hu, Vladislav Orekhov, Zhong Chen
Chemical communications (Cambridge, England) - 2018 -
Measurement of protein backbone (CO)-C-13 and N-15 relaxation dispersion at high
resolution
Maxim Mayzel, A. Ahlner, P. Lundstrom, Vladislav Orekhov
Journal of Biomolecular NMR - 2017 -
A Population Shift between Sparsely Populated Folding Intermediates Determines
Amyloidogenicity
T. K. Karamanos, C. L. Pashley, A. P. Kalverda, G. S. Thompson, Maxim Mayzel, Vladislav Orekhov, S. E. Radford
Journal of the American Chemical Society - 2016 -
Backbone Assignment of the MALT1 Paracaspase by Solution
NMR
S. Unnerstale, Michal Nowakowski, V. Baraznenok, G. Stenberg, J. Lindberg, Maxim Mayzel, Vladislav Orekhov, T. Agback
Plos One - 2016 -
Non-uniform sampling: Post-Fourier era of NMR data collection and
processing
Krzysztof Kazimierczuk, Vladislav Orekhov
Magnetic Resonance in Chemistry - 2015 -
Fast multi-dimensional NMR acquisition and processing using the sparse
FFT
H. Hassanieh, Maxim Mayzel, L. X. Shi, D. Katabi, Vladislav Orekhov
Journal of Biomolecular Nmr - 2015 -
Accelerated NMR Spectroscopy with Low-Rank
Reconstruction
X. B. Qu, Maxim Mayzel, J. F. Cai, Z. Chen, Vladislav Orekhov
Angewandte Chemie-International Edition - 2015 -
The causality principle in the reconstruction of sparse NMR
spectra
Maxim Mayzel, Krzysztof Kazimierczuk, Vladislav Orekhov
Chemical Communications - 2014 -
Tyrosine Phosphorylation within the Intrinsically Disordered Cytosolic Domains of the B-Cell Receptor: An NMR-Based Structural
Analysis
Joakim Rosenlöw, Linnéa Isaksson, Maxim Mayzel, Johan Lengqvist, Vladislav Orekhov
Plos One - 2014 -
Time-resolved multidimensional NMR with non-uniform
sampling
Maxim Mayzel, Joakim Rosenlöw, Linnéa Isaksson, Vladislav Orekhov
Journal of Biomolecular Nmr - 2014 -
Highly Efficient NMR Assignment of Intrinsically Disordered Proteins: Application to B- and T Cell Receptor
Domains
Linnéa Isaksson, Maxim Mayzel, Maria Saline, Anders Pedersen, Joakim Rosenlöw, B. Brutscher, B Göran Karlsson, Vladislav Orekhov
PLoS ONE - 2013 -
Effects of NMR Spectral Resolution on Protein Structure
Calculation
S. Tikole, Victor Jaravine, Vladislav Orekhov, P. Guntert
Plos One - 2013 -
A comparison of convex and non-convex compressed sensing applied to multidimensional
NMR
Krzysztof Kazimierczuk, Vladislav Orekhov
Journal of Magnetic Resonance - 2012 -
Novel Sampling Approaches in Higher Dimensional
NMR
Martin Billeter, Vladislav Orekhov
2012 -
Accelerated NMR Spectroscopy by Using Compressed
Sensing
Krzysztof Kazimierczuk, Vladislav Orekhov
Angewandte Chemie-International Edition - 2011 -
Unraveling superimposed EEG rhythms with multi-dimensional
decomposition.
Elena V Orekhova, Mikael Elam, Vladislav Orekhov
Journal of neuroscience methods - 2011 -
Analysis of non-uniformly sampled spectra with Multi-Dimensional
Decomposition
Vladislav Orekhov, V. A. Jaravine
Progress in Nuclear Magnetic Resonance Spectroscopy - 2011 -
The structure of superantigen complexed with TCR and MHC reveals novel insights into superantigenic T cell
activation.
Maria Saline, Karin Rödström, Gerhard Fischer, Vladislav Orekhov, B Göran Karlsson, Karin Lindkvist-Petersson
Nature communications - 2010 -
The structure of superantigen complexed with TCR and MHC reveals novel insights into superantigenic T cell
activation
Karin Rödström, Maria Saline, Gerhard Fischer, Vladislav Orekhov, B Göran Karlsson, Karin Lindkvist-Petersson
The 14th annual conference of the Swedish Structural Biology Nework, 2010 - 2010 -
Coupled Decomposition of Four-Dimensional NOESY
Spectra
S. Hiller, I. Ibraghimov, G. Wagner, Vladislav Orekhov
Journal of the American Chemical Society - 2009 -
Backbone resonance assignment of Staphylococcal Enterotoxin
H.
Maria Saline, Vladislav Orekhov, Karin Lindkvist-Petersson, B Göran Karlsson
Biomolecular NMR assignments - 2009 -
Backbone and ILV side chain methyl group assignments of the integral human membrane protein
VDAC-1
S. Hiller, T. J. Malia, R. G. Garces, Vladislav Orekhov, G. Wagner
Biomol NMR assignments - 2009 -
Divided evolution: a scheme for suppression of line broadening induced by conformational
exchange
Anastasia Zhuravleva, Vladislav Orekhov
Journal of the American Chemical Society - 2008 -
Hyper-dimensional NMR spectroscopy with nonlinear
sampling
Victor Jaravine, Anastasia Zhuravleva, P. Permi, I. Ibraghimov, Vladislav Orekhov
Journal of the American Chemical Society - 2008 -
Solution structure of the integral human membrane protein VDAC-1 in detergent
micelles
S. Hiller, R. G. Garces, T. J. Malia, Vladislav Orekhov, M. Colombini, G. Wagner
Science - 2008 -
Automatic assignment of protein backbone resonances by direct spectrum inspection in targeted acquisition of NMR
data
L. E. Wong, J. E. Masse, Victor Jaravine, Vladislav Orekhov, K. Pervushin
Journal of Biomolecular Nmr - 2008 -
Propagation of dynamic changes in barnase upon binding of barstar: an NMR and computational
study.
Anastasia Zhuravleva, Dmitry M Korzhnev, Svetlana B Nolde, Lewis E Kay, Alexander S Arseniev, Martin Billeter, Vladislav Orekhov
Journal of molecular biology - 2007 -
Binding of intrinsically disordered proteins is not necessarily accompanied by a structural transition to a folded
form
Alexander B. Sigalov, Anastasia Zhuravleva, Vladislav Orekhov
Biochimie - 2007 -
Removal of a time barrier for high-resolution multidimensional NMR
spectroscopy
Victor Jaravine, Ilgis Ibraghimov, Vladislav Orekhov
Nature Methods - 2006 -
Targeted acquisition for real-time NMR
spectroscopy
Victor Jaravine, Vladislav Orekhov
Journal of the American Chemical Society - 2006 -
Solution NMR-derived global fold of a monomeric 82-kDa
enzyme
Vitali Tugarinov, Wing-Yiu Choy, Vladislav Orekhov, Lewis E. Kay
Proceedings of the National Academy of Sciences of the United States of America - 2005 -
Off-resonance R1(p) NMR studies of exchange dynamics in proteins with low spin-lock fields: An application to a fyn SH3
domain
Dmitry M. Korzhnev, Vladislav Orekhov, Lewis E. Kay
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY - 2005 -
High-resolution four-dimensional H-1-C-13 NOE spectroscopy using methyl-TROSY, sparse data acquisition, and multidimensional
decomposition
Vitali Tugarinov, Lewis E. Kay, Ilghiz Ibraghimov, Vladislav Orekhov
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY - 2005 -
Accuracy and robustness of three-way decomposition applied to NMR
data.
Tu Luan, Vladislav Orekhov, Aleksandras Gutmanas, Martin Billeter
Journal of magnetic resonance (San Diego, Calif. : 1997) - 2005 -
Optimization of resolution and sensitivity of 4D NOESY using multi-dimensional
decomposition
Tu Luan, Victor Jaravine, A. Yee, C.H. Arrowsmith, Vladislav Orekhov
Journal of Biomolecular NMR - 2005 -
Multiple-site exchange in proteins studied with a suite of six NMR relaxation dispersion experiments: An application to the folding of a Fyn SH3 domain
mutant
Dmitry M. Korzhnev, Philipp Neudecker, Anthony Mittermaier, Vladislav Orekhov, Lewis E. Kay
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY - 2005 -
qTROSY - a novel scheme for recovery of the anti-TROSY
magnetisation
Tammo Diercks, Vladislav Orekhov
JOURNAL OF BIOMOLECULAR NMR - 2005 -
Accurate relaxation parameters for large
proteins.
Aleksandras Gutmanas, Luan Tu, Vladislav Orekhov, Martin Billeter
Journal of magnetic resonance (San Diego, Calif. : 1997) - 2004 -
Gated electron transfers and electron pathways in azurin: a NMR dynamic study at multiple fields and
temperatures.
Anastasia Zhuravleva, Dmitry M Korzhnev, Eriks Kupce, Alexander S Arseniev, Martin Billeter, Vladislav Orekhov
Journal of molecular biology - 2004 -
Double- and zero-quantum NMR relaxation dispersion experiments sampling millisecond time scale dynamics in
proteins
Vladislav Orekhov, Dmitry M. Korzhnev, Lewis E. Kay
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY - 2004