Danielsons grupp

Integrated computational and biosensor-based strategies for the discovery of allosteric SMYD3 ligands using diperodon as a starting point

FitzGerald, Edward; Rachman, Moira; Cederfelt, Daniela; Myers, Nadine et al.

Ingår i Bioorganic & Medicinal Chemistry, 2025

• DOI för Integrated computational and biosensor-based strategies for the discovery of allosteric SMYD3 ligands using diperodon as a starting point
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Regulatory effects of RNA-protein interactions revealed by reporter assays of bacteria grown on solid media

Pérez-Ropero, Guillermo; Dolcemascolo, Roswitha; Pérez-Ràfols, Anna; Andersson, Karl et al.

Ingår i Biosensors, 2025

• DOI för Regulatory effects of RNA-protein interactions revealed by reporter assays of bacteria grown on solid media
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Deciphering the RNA recognition by Musashi-1 to design protein and RNA variants for in vitro and in vivo applications

Perez-Rafols, Anna; Perez-Ropero, Guillermo; Cerofolini, Linda; Sperotto, Luca et al.

Ingår i Nucleic Acids Research, 2025

• DOI för Deciphering the RNA recognition by Musashi-1 to design protein and RNA variants for in vitro and in vivo applications
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Multiplexed experimental strategies for fragment library screening against challenging drug targets using SPR biosensors

FitzGerald, Edward; Vagrys, Darius; Opassi, Giulia; Klein, Hanna F. et al.

Ingår i SLAS Discovery, s. 40-51, 2024

• DOI för Multiplexed experimental strategies for fragment library screening against challenging drug targets using SPR biosensors
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The Role of Water Networks in Phosphodiesterase Inhibitor Dissociation and Kinetic Selectivity

Blaazer, Antoni R.; Singh, Abhimanyu K.; Zara, Lorena; Boronat, Pierre et al.

Ingår i ChemMedChem, 2024

• DOI för The Role of Water Networks in Phosphodiesterase Inhibitor Dissociation and Kinetic Selectivity
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Identification of fragments targeting SMYD3 using highly sensitive kinetic and multiplexed biosensor-based screening

FitzGerald, Edward A.; Cederfelt, Daniela; Lund, Bjarte Aarmo; Myers, Nadine et al.

Ingår i RSC Medicinal Chemistry, s. 1982-1990, 2024

• DOI för Identification of fragments targeting SMYD3 using highly sensitive kinetic and multiplexed biosensor-based screening
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Production of stable and pure ZC3H11A-An extensively disordered RNA binding protein

Fekry, Mostafa; Stenberg, Gun; Dobritzsch, Doreen; Danielson, U. Helena

Ingår i Protein Expression and Purification, 2024

• DOI för Production of stable and pure ZC3H11A-An extensively disordered RNA binding protein
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Unraveling the Bivalent and Rapid Interactions Between a Multivalent RNA Recognition Motif and RNA: A Kinetic Approach

Pérez-Ropero, Guillermo; Perez-Rafols, Anna; Martelli, Tommasso; Danielson, U. Helena et al.

Ingår i Biochemistry, s. 2816-2829, 2024

• DOI för Unraveling the Bivalent and Rapid Interactions Between a Multivalent RNA Recognition Motif and RNA: A Kinetic Approach
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Amino acid substitutions in human growth hormone affect secondary structure and receptor binding

Rajkovic, Andrei; Kanchugal, Sandesh; Abdurakhmanov, Eldar; Howard, Rebecca et al.

Ingår i PLOS ONE, 2023

• DOI för Amino acid substitutions in human growth hormone affect secondary structure and receptor binding
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The Crystal Structure of Tyrosinase from Verrucomicrobium spinosum Reveals It to Be an Atypical Bacterial Tyrosinase

Fekry, Mostafa; Dave, Khyati K.; Badgujar, Dilip; Hamnevik, Emil et al.

Ingår i Biomolecules, 2023

• DOI för The Crystal Structure of Tyrosinase from Verrucomicrobium spinosum Reveals It to Be an Atypical Bacterial Tyrosinase
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The Allosteric Regulation of Β-Ureidopropionase Depends on Fine-Tuned Stability of Active-Site Loops and Subunit Interfaces

Cederfelt, Daniela; Badgujar, Dilip; Au Musse, Ayan; Lohkamp, Bernhard et al.

Ingår i Biomolecules, 2023

• DOI för The Allosteric Regulation of Β-Ureidopropionase Depends on Fine-Tuned Stability of Active-Site Loops and Subunit Interfaces
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Sensitive protein detection using site-specifically oligonucleotide-conjugated nanobody reagents

Al-Amin, Rasel Abdullah; Muthelo, Phathutshedzo M.; Abdurakhmanov, Eldar; Vincke, Cecile et al.

Ingår i Analytical Chemistry, s. 10054-10061, 2022

• DOI för Sensitive protein detection using site-specifically oligonucleotide-conjugated nanobody reagents
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Ultralarge Virtual Screening Identifies SARS-CoV-2 Main Protease Inhibitors with Broad-Spectrum Activity against Coronaviruses

Luttens, Andreas; Gullberg, Hjalmar; Abdurakhmanov, Eldar; Vo, Duy Duc et al.

Ingår i Journal of the American Chemical Society, s. 2905-2920, 2022

• DOI för Ultralarge Virtual Screening Identifies SARS-CoV-2 Main Protease Inhibitors with Broad-Spectrum Activity against Coronaviruses
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Monitoring drug–target interactions through target engagement-mediated amplification on arrays and in situ

Al-Amin, Rasel A.; Johansson, Lars; Abdurakhmanov, Eldar; Landegren, Nils et al.

Ingår i Nucleic Acids Research, 2022

• DOI för Monitoring drug–target interactions through target engagement-mediated amplification on arrays and in situ
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Discovery of the 4-aminopiperidine-based compound EM127 for the site-specific covalent inhibition of SMYD3

Parenti, Marco Daniele; Naldi, Marina; Manoni, Elisabetta; Fabini, Edoardo et al.

Ingår i European Journal of Medicinal Chemistry, 2022

• DOI för Discovery of the 4-aminopiperidine-based compound EM127 for the site-specific covalent inhibition of SMYD3

Discovery of an allosteric ligand binding site in SMYD3 lysine methyltransferase

Talibov, Vladimir O; Fabini, Edoardo; FitzGerald, Edward; Tedesco, Daniele et al.

Ingår i ChemBioChem, s. 1597-1608, 2021

• DOI för Discovery of an allosteric ligand binding site in SMYD3 lysine methyltransferase
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Discovery of fragments inducing conformational effects in dynamic proteins using a second-harmonic generation biosensor

FitzGerald, Edward A.; Butko, Margaret T.; Boronat, Pierre; Cederfelt, Daniela et al.

Ingår i RSC Advances, s. 7527-7537, 2021

• DOI för Discovery of fragments inducing conformational effects in dynamic proteins using a second-harmonic generation biosensor
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Fibrin fragment E potentiates TGF-beta-induced myofibroblast activation and recruitment

Öhman Fuchs, Peder; Calitz, Carlemi; Pavlovic, Natasa; Binet, Francois et al.

Ingår i Cellular Signalling, 2020

• DOI för Fibrin fragment E potentiates TGF-beta-induced myofibroblast activation and recruitment
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Estimating Detection Limits of Potentiometric DNA sensors Using Surface Plasmon Resonance Analyses

Xu, Xingxing; Makaraviciute, Asta; Abdurakhmanov, Eldar; Werneling, Fredrik et al.

Ingår i ACS Sensors, s. 217-224, 2020

• DOI för Estimating Detection Limits of Potentiometric DNA sensors Using Surface Plasmon Resonance Analyses

A real-time cell-binding assay reveals dynamic features of STxB-Gb3 cointernalization and STxB-mediated cargo delivery into cancer cells

Encarnacao, Joao Crispim; Napolitano, Valeria; Opassi, Giulia; Danielson, U. Helena et al.

Ingår i FEBS Letters, s. 2406-2420, 2020

• DOI för A real-time cell-binding assay reveals dynamic features of STxB-Gb3 cointernalization and STxB-mediated cargo delivery into cancer cells
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Macrocyclic Peptides Uncover a Novel Binding Mode for Reversible Inhibitors of LSD1

Yang, Jie; Talibov, Vladimir O; Peintner, Stefan; Rhee, Claire et al.

Ingår i ACS Omega, s. 3979-3995, 2020

• DOI för Macrocyclic Peptides Uncover a Novel Binding Mode for Reversible Inhibitors of LSD1
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Establishing Trypanosoma cruzi farnesyl pyrophosphatesynthase as a viable target for biosensor driven fragment-based lead discovery

Opassi, Giulia; Nordström, Helena; Lundin, Arne; Napolitano, Valeria et al.

Ingår i Protein Science, s. 991-1003, 2020

• DOI för Establishing Trypanosoma cruzi farnesyl pyrophosphatesynthase as a viable target for biosensor driven fragment-based lead discovery
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Structural Changes of Mercaptohexanol Self-assembled Monolayers on Gold and their Influence on Impedimetric Aptamer Sensors

Xu, Xingxing; Makaraviciute, Asta; Kumar, Shalen; Wen, Chenyu et al.

Ingår i Analytical Chemistry, s. 14697-14704, 2019

• DOI för Structural Changes of Mercaptohexanol Self-assembled Monolayers on Gold and their Influence on Impedimetric Aptamer Sensors

Unveiling the Biochemistry of the Epigenetic Regulator SMYD3

Fabini, Edoardo; Talibov, Vladimir O; Mihalic, Filip; Naldi, Marina et al.

Ingår i Biochemistry, s. 3634-3645, 2019

• DOI för Unveiling the Biochemistry of the Epigenetic Regulator SMYD3

Pan-NS3 protease inhibitors of hepatitis C virus based on an R3-elongated pyrazinone scaffold

Belfrage, Anna Karin; Abdurakhmanov, Eldar; Åkerblom, Eva; Brandt, Peter et al.

Ingår i European Journal of Medicinal Chemistry, s. 453-464, 2018

• DOI för Pan-NS3 protease inhibitors of hepatitis C virus based on an R3-elongated pyrazinone scaffold

Introduction of Intrinsic Kinetics of Protein-Ligand Interactions and Their Implications for Drug Design

Linkuviene, Vaida; Talibov, Vladimir O; Danielson, U. Helena; Matulis, Daumantas

Ingår i Journal of Medicinal Chemistry, s. 2292-2302, 2018

• DOI för Introduction of Intrinsic Kinetics of Protein-Ligand Interactions and Their Implications for Drug Design

Noelin1 Affects Lateral Mobility of Synaptic AMPA Receptors

Pandya, Nikhil J; Seeger, Christian; Babai, Norbert; Gonzalez-Lozano, Miguel A et al.

Ingår i Cell Reports, s. 1218-1230, 2018

• DOI för Noelin1 Affects Lateral Mobility of Synaptic AMPA Receptors
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Development of a novel therapeutic vaccine carrier that sustains high antibody titers against several targets simultaneously

Saupe, Falk; Reichel, Matthias; Huijbers, Elisabeth J. M.; Femel, Julia et al.

Ingår i The FASEB Journal, s. 1204-1214, 2017

• DOI för Development of a novel therapeutic vaccine carrier that sustains high antibody titers against several targets simultaneously

Intrinsic vs. observed thermodynamic and kinetic parameters of carbonic anhydrase-ligand interaction

Linkuviene, V.; Talibov, Vladimir O; Danielson, U. Helena; Matulis, D.

Ingår i European Biophysics Journal, 2017

• DOI för Intrinsic vs. observed thermodynamic and kinetic parameters of carbonic anhydrase-ligand interaction

Intrinsic vs. observed thermodynamic and kinetic parameters of carbonic anhydrase-ligand interaction

Linkuviene, V.; Talibov, Vladimir O.; Danielson, U. Helena; Matulis, D.

Ingår i European Biophysics Journal, 2017

• DOI för Intrinsic vs. observed thermodynamic and kinetic parameters of carbonic anhydrase-ligand interaction

Biophysical analysis of the dynamics of calmodulin interactions with neurogranin and Ca²⁺/calmodulin-dependent kinase II

Seeger, Christian; Talibov, Vladimir O; Danielson, U. Helena

Ingår i Journal of Molecular Recognition, s. 1-11, 2017

• DOI för Biophysical analysis of the dynamics of calmodulin interactions with neurogranin and Ca²⁺/calmodulin-dependent kinase II
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Monitoring drug-serum protein interactions for early ADME prediction through Surface Plasmon Resonance technology

Fabini, Edoardo; Danielson, U. Helena

Ingår i Journal of Pharmaceutical and Biomedical Analysis, s. 188-194, 2017

• DOI för Monitoring drug-serum protein interactions for early ADME prediction through Surface Plasmon Resonance technology

Biophysical Mode-of-Action and Selectivity Analysis of Allosteric Inhibitors of Hepatitis C Virus (HCV) Polymerase

Abdurakhmanov, Eldar; Solbak, Sara Oie; Danielson, U. Helena

Ingår i Viruses, 2017

• DOI för Biophysical Mode-of-Action and Selectivity Analysis of Allosteric Inhibitors of Hepatitis C Virus (HCV) Polymerase
• Ladda ner fulltext (pdf) av Biophysical Mode-of-Action and Selectivity Analysis of Allosteric Inhibitors of Hepatitis C Virus (HCV) Polymerase

Insights from engineering the Affibody-Fc interaction with a computational-experimental method

Nosrati, Masoumeh; Solbak, Sara; Nordesjö, Olle; Nissbeck, Mikael et al.

Ingår i Protein Engineering Design & Selection, s. 593-601, 2017

• DOI för Insights from engineering the Affibody-Fc interaction with a computational-experimental method

Characterization of interactions between hepatitis C virus NS5B polymerase, annexin A2 and RNA - effects on NS5B catalysis and allosteric inhibition

Solbak, Sara M.Ø.; Abdurakhmanov, Eldar; Vedeler, Anni; Danielson, U. Helena

Ingår i Virology Journal, 2017

• DOI för Characterization of interactions between hepatitis C virus NS5B polymerase, annexin A2 and RNA - effects on NS5B catalysis and allosteric inhibition
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Biophysics in drug discovery: impact, challenges and opportunities

Renaud, Jean-Paul; Chung, Chun-wa; Danielson, U. Helena; Egner, Ursula et al.

Ingår i Nature reviews. Drug discovery, s. 679-698, 2016

• DOI för Biophysics in drug discovery: impact, challenges and opportunities

Kinetically Selective Inhibitors of Human Carbonic Anhydrase Isozymes I, II, VII, IX, XII, and XIII

Talibov, Vladimir O; Linkuvienė, Vaida; Matulis, Daumantas; Danielson, Helena U.

Ingår i Journal of Medicinal Chemistry, s. 2083-2093, 2016

• DOI för Kinetically Selective Inhibitors of Human Carbonic Anhydrase Isozymes I, II, VII, IX, XII, and XIII

Discovery of pyrazinone based compounds that potently inhibit the drug resistant enzyme variant R155K of the hepatitis C virus NS3 protease

Belfrage, Anna Karin; Abdurakhmanov, Eldar; Åkerblom, Eva; Brandt, Peter et al.

Ingår i Bioorganic & Medicinal Chemistry, s. 2603-2620, 2016

• DOI för Discovery of pyrazinone based compounds that potently inhibit the drug resistant enzyme variant R155K of the hepatitis C virus NS3 protease

Let There Be Light!

Raykova, Doroteya; Koos, Bjoern; Asplund, Anna; Gelleri, Marton et al.

Ingår i Proteomes, 2016

• DOI för Let There Be Light!
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Molecular blueprint of allosteric binding sites in a homologue of the agonist-binding domain of the alpha 7 nicotinic acetylcholine receptor

Spurny, Radovan; Debaveye, Sarah; Farinha, Ana; Veys, Ken et al.

Ingår i Proceedings of the National Academy of Sciences of the United States of America, 2015

• DOI för Molecular blueprint of allosteric binding sites in a homologue of the agonist-binding domain of the alpha 7 nicotinic acetylcholine receptor

Molecular Interaction Analysis for Discovery of Drugs Targeting Enzymes and for Resolving Biological Function

Danielson, U. Helena

Ingår i Multifaceted Roles Of Crystallography In Modern Drug Discovery, s. 223-240, 2015

• DOI för Molecular Interaction Analysis for Discovery of Drugs Targeting Enzymes and for Resolving Biological Function

Proximity-dependent initiation of hybridization chain reaction

Koos, Björn; Cane, Gaëlle; Grannas, Karin; Löf, Liza et al.

Ingår i Nature Communications, 2015

• DOI för Proximity-dependent initiation of hybridization chain reaction
• Ladda ner fulltext (pdf) av Proximity-dependent initiation of hybridization chain reaction

Analysis of the leakage of gene repression by an artificial TetR-regulated promoter in cyanobacteria

Danielson, U Helena; Huang, H H; Seeger, Christian; Lindblad, Peter

Ingår i BMC Research Notes, s. 459, 2015

Identification and Characterization of an Irreversible Inhibitor of CDK2

Anscombe, Elizabeth; Meschini, Elisa; Mora-Vidal, Regina; Martin, Mathew P. et al.

Ingår i Chemistry and Biology, s. 1159-1164, 2015

• DOI för Identification and Characterization of an Irreversible Inhibitor of CDK2
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Analysis of the leakage of gene repression by an artificial TetR-regulated promoter in cyanobacteria

Huang, Hsin-Ho; Seeger, Christian; Danielson, U. Helena; Lindblad, Peter

Ingår i BMC Research Notes, 2015

• DOI för Analysis of the leakage of gene repression by an artificial TetR-regulated promoter in cyanobacteria
• Ladda ner fulltext (pdf) av Analysis of the leakage of gene repression by an artificial TetR-regulated promoter in cyanobacteria

Identification and characterization of an irreversible inhibitor of CDK2

Martin, M.; Anscombe, E.; Meschini, E.; Staunton, D. et al.

Ingår i European Journal of Cancer, s. 106-106, 2014

• DOI för Identification and characterization of an irreversible inhibitor of CDK2

The Versatile Nature of the 6-Aminoquinolone Scaffold: Identification of Submicromolar Hepatitis C Virus NS5B Inhibitors

Manfroni, Giuseppe; Cannalire, Rolando; Barreca, Maria Letizia; Kaushik-Basu, Neerja et al.

Ingår i Journal of Medicinal Chemistry, s. 1952-1963, 2014

• DOI för The Versatile Nature of the 6-Aminoquinolone Scaffold: Identification of Submicromolar Hepatitis C Virus NS5B Inhibitors

Achiral Pyrazinone-Based Inhibitors of the Hepatitis C Virus NS3 Protease and Drug-Resistant Variants with Elongated Substituents Directed Toward the S2 Pocket

Gising, Johan; Belfrage, Anna Karin; Alogheli, Hiba; Ehrenberg, Angelica et al.

Ingår i Journal of Medicinal Chemistry, s. 1790-1801, 2014

• DOI för Achiral Pyrazinone-Based Inhibitors of the Hepatitis C Virus NS3 Protease and Drug-Resistant Variants with Elongated Substituents Directed Toward the S2 Pocket

Identification of Weak Points of Hepatitis C Virus NS3 Protease Inhibitors Using Surface Plasmon Resonance Biosensor-Based Interaction Kinetic Analysis and Genetic Variants

Svahn Gustafsson, Sofia; Ehrenberg, Angelica; Schmuck, Benjamin; Anwar, Muhammad Ikram et al.

Ingår i Journal of Medicinal Chemistry, s. 1802-1811, 2014

• DOI för Identification of Weak Points of Hepatitis C Virus NS3 Protease Inhibitors Using Surface Plasmon Resonance Biosensor-Based Interaction Kinetic Analysis and Genetic Variants

Novel Peptidomimetic Hepatitis C Virus NS3/4A Protease Inhibitors Spanning the P2–P1′ Region

Lampa, Anna; Bergman, Sara; Svahn Gustafsson, Sofia; Alogheli, Hiba et al.

Ingår i ACS Medicinal Chemistry Letters, s. 249-254, 2014

• DOI för Novel Peptidomimetic Hepatitis C Virus NS3/4A Protease Inhibitors Spanning the P2–P1′ Region