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Design of inhibitor peptide sequences based on the interfacial knowledge of the protein G-IgG crystallographic complex and their binding studies with IgG Eur. Biophys. J. (IF 2.0) Pub Date : 2024-03-17
Abstract Protein–protein interactions (PPI) have emerged as valuable targets in medicinal chemistry due to their key roles in important biological processes. The modulation of PPI by small peptides offers an excellent opportunity to develop drugs against human diseases. Here, we exploited the knowledge of the binding interface of the IgG-protein G complex (PDB:1FCC) for designing peptides that can
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Structure of a novel form of phosphopantetheine adenylyltransferase from Klebsiella pneumoniae at 2.59 Å resolution Eur. Biophys. J. (IF 2.0) Pub Date : 2024-03-08
Abstract Phosphopantetheine adenylyltransferase (EC. 2.7.7.3, PPAT) catalyzes the penultimate step of the multistep reaction in the coenzyme A (CoA) biosynthesis pathway. In this step, an adenylyl group from adenosine triphosphate (ATP) is transferred to 4′-phosphopantetheine (PNS) yielding 3′-dephospho-coenzyme A (dpCoA) and pyrophosphate (PPi). PPAT from strain C3 of Klebsiella pneumoniae (KpPPAT)
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Observation of magnet-induced star-like radiation of a plasma created from cancer cells in a laser trap Eur. Biophys. J. (IF 2.0) Pub Date : 2024-03-07 D. Erenso, L. Tran, I. Abualrob, M. Bushra, J. Hengstenberg, E. Muhammed, I. Endale, N. Endale, E. Endale, S. Mayhut, N. Torres, P. Sheffield, C. Vazquez, H. Crogman, C. Nichols, T. Dang, E. E. Hach
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Ultraviolet C intensity dependence of decontamination efficiency for pathogens as function of repacked metamaterials with screw channels Eur. Biophys. J. (IF 2.0) Pub Date : 2024-02-28 Ion Munteanu, Elena Starodub, Sergiu Bazgan, Marina Turcan, Tatiana Paslari, Diana Podoleanu, Nicolae A. Enaki
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BASIS: BioAnalysis SEDFIT integrated software for cGMP analysis of SV-AUC data Eur. Biophys. J. (IF 2.0) Pub Date : 2024-02-08 Alexander E. Yarawsky, Erik S. Gough, Valeria Zai-Rose, Natalya I. Figueroa, Hazel M. Cunningham, John W. Burgner, Michael T. DeLion, Lake N. Paul
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Vibration spectra of DNA and RNA segments Eur. Biophys. J. (IF 2.0) Pub Date : 2024-01-24 Samira Jalilvand, Hamze Mousavi
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Real-time tilting and twisting motions of ligand-bound states of α7 nicotinic acetylcholine receptor Eur. Biophys. J. (IF 2.0) Pub Date : 2024-01-17 Yue Yang, Tatsuya Arai, Daisuke Sasaki, Masahiro Kuramochi, Hidetoshi Inagaki, Sumiko Ohashi, Hiroshi Sekiguchi, Kazuhiro Mio, Tai Kubo, Yuji C. Sasaki
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Quenching of G4-DNA intrinsic fluorescence by ligands Eur. Biophys. J. (IF 2.0) Pub Date : 2024-01-13
Abstract G-quadruplex (G4) structures formed by the guanine-rich DNA regions exhibit several distinctive optical properties, including UV absorption and circular dichroism spectra. Some G4 DNA possess intrinsic UV fluorescence whose origin is not completely clear to date. In this work, we study the effect of TMPyP4 and Methylene Blue on the intrinsic fluorescence of the dimeric G4 DNA structure formed
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Swimming polarity inversion in uncultured magnetotactic cocci Eur. Biophys. J. (IF 2.0) Pub Date : 2024-01-12 Giovanny Angiolillo, Fernanda Abreu, Daniel Acosta-Avalos
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Probing the interactions of the HIV-1 matrix protein-derived polybasic region with lipid bilayers: insights from AFM imaging and force spectroscopy Eur. Biophys. J. (IF 2.0) Pub Date : 2024-01-03 Chinta M. Aryal, Jianjun Pan
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Electrophoresis, a transport technology that transitioned from moving boundary method to zone method Eur. Biophys. J. (IF 2.0) Pub Date : 2023-12-30 Tsutomu Arakawa, Masataka Nakagawa, Chiaki Sakuma, Yui Tomioka, Yasunori Kurosawa, Daisuke Ejima, Teruo Akuta
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Inhibitor design for TMPRSS2: insights from computational analysis of its backbone hydrogen bonds using a simple descriptor Eur. Biophys. J. (IF 2.0) Pub Date : 2023-12-29 Suraj Ugrani
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Peptide-based pore formation and cell membrane deformation: European Biophysics Journal Prizes at EBSA 2023 Eur. Biophys. J. (IF 2.0) Pub Date : 2023-11-23 Robert J. C. Gilbert
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Drug–ionic surfactant interactions: density, sound speed, spectroscopic, and electrochemical studies Eur. Biophys. J. (IF 2.0) Pub Date : 2023-11-09 Muhammad Sohail, Hafiz Muhammad Abd Ur Rahman, Muhammad Nadeem Asghar
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Annexin A5 stabilizes matrix vesicle-biomimetic lipid membranes: unravelling a new role of annexins in calcification Eur. Biophys. J. (IF 2.0) Pub Date : 2023-11-08 Claudio R. Ferreira, Marcos Antônio E. Cruz, Maytê Bolean, Luiz Henrique da S. Andrilli, José Luis Millan, Ana Paula Ramos, Massimo Bottini, Pietro Ciancaglini
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Correction to: Relation between flexibility and intrinsically disorder regions in thermosensitive TRP channels reveal allosteric effects. Eur. Biophys. J. (IF 2.0) Pub Date : 2023-11-07 Abigail García-Morales,Nancy O Pulido,Daniel Balleza
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Special Issue: 18th Congress of the Polish Biophysical Society Eur. Biophys. J. (IF 2.0) Pub Date : 2023-10-26 Jan M. Antosiewicz, Robert Gilbert, Piotr E. Marszalek
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Stability of multilamellar lipid tubules in excess water Eur. Biophys. J. (IF 2.0) Pub Date : 2023-10-26 Tripta Bhatia
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On the role of calcium diffusion and its rapid buffering in intraflagellar signaling Eur. Biophys. J. (IF 2.0) Pub Date : 2023-10-18 M. V. Satarić, T. Nemeš
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Diversity of hydrodynamic radii of intrinsically disordered proteins Eur. Biophys. J. (IF 2.0) Pub Date : 2023-10-13 Michał K. Białobrzewski, Barbara P. Klepka, Agnieszka Michaś, Maja K. Cieplak-Rotowska, Zuzanna Staszałek, Anna Niedźwiecka
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An intramolecular disulphide bond in human 4E-T affects its binding to eIF4E1a protein Eur. Biophys. J. (IF 2.0) Pub Date : 2023-10-05 Joanna Zuberek, Marek Warzecha, Mateusz Dobrowolski, Anna Modrak-Wojcik
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Relation between flexibility and intrinsically disorder regions in thermosensitive TRP channels reveal allosteric effects Eur. Biophys. J. (IF 2.0) Pub Date : 2023-09-30 García-Morales Abigail, Pulido Nancy O, Balleza Daniel
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Physics of collective cell migration Eur. Biophys. J. (IF 2.0) Pub Date : 2023-09-14 Ivana Pajic-Lijakovic, Milan Milivojevic
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MIL-CELL: a tool for multi-scale simulation of yeast replication and prion transmission Eur. Biophys. J. (IF 2.0) Pub Date : 2023-09-05 Damien Hall
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N2 modified cap analogues as translation inhibitors and substrates for preparation of therapeutic mRNA Eur. Biophys. J. (IF 2.0) Pub Date : 2023-09-01 Karol Kurpiejewski, Marzena Jankowska-Anyszka, Renata Grzela
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Mammalian Nudt15 hydrolytic and binding activity on methylated guanosine mononucleotides Eur. Biophys. J. (IF 2.0) Pub Date : 2023-08-29 Maciej Lukaszewicz, Aleksandra Ferenc-Mrozek, Julia Kokosza, Anna Stefaniuk, Janusz Stepinski, Elzbieta Bojarska, Edward Darzynkiewicz
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Structure and dynamics of pteridine reductase 1: the key phenomena relevant to enzyme function and drug design Eur. Biophys. J. (IF 2.0) Pub Date : 2023-08-22 Joanna Panecka-Hofman, Ina Poehner
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Peptide nucleic acid conjugates and their antimicrobial applications—a mini-review Eur. Biophys. J. (IF 2.0) Pub Date : 2023-08-23 Uladzislava Tsylents, Izabela Siekierska, Joanna Trylska
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Long-term memory in Staphylococcus aureus α-hemolysin ion channel kinetics Eur. Biophys. J. (IF 2.0) Pub Date : 2023-08-05 M. P. Silva, C. G. Rodrigues, D. C. Machado, R. A. Nogueira
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Proceedings of the 25th Analytical Ultracentrifugation Workshops and Symposium Eur. Biophys. J. (IF 2.0) Pub Date : 2023-08-01 Borries Demeler, Robert Gilbert, Trushar R. Patel
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Tautomeric equilibrium and spectroscopic properties of 8-azaguanine revealed by quantum chemistry methods Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-28 Maciej Maciejczyk, Maciej Pyrka
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Suitability of double-stranded DNA as a molecular standard for the validation of analytical ultracentrifugation instruments Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-27 Maduni Ranasinghe, Jonathan M. Fogg, Daniel J. Catanese, Lynn Zechiedrich, Borries Demeler
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Experimental support for reclassification of the light scattering second virial coefficient from macromolecular solutions as a hydrodynamic parameter Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-18 Donald J. Winzor, Vlad Dinu, David J. Scott, Stephen E. Harding
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Retrospective rationalization of disparities between the concentration dependence of diffusion coefficients obtained by boundary spreading and dynamic light scattering Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-07 Donald J. Winzor, Vlad Dinu, David J. Scott, Stephen E. Harding
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Energy spectrum of the ideal DNA knot on a torus Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-01 Xuguang Shi
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14th EBSA congress, July 31 - August 4, 2023, Stockholm, Sweden - Abstracts. Eur. Biophys. J. (IF 2.0) Pub Date : 2023-07-01
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The cross-correlation-based analysis to digest the conformational dynamics of the mitoBK channels in terms of their modulation by flavonoids Eur. Biophys. J. (IF 2.0) Pub Date : 2023-06-30 Agata Wawrzkiewicz-Jałowiecka, Paulina Trybek, Beata Dworakowska, Piotr Bednarczyk, Przemysław Borys
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Choosing the right density for a concentrated protein system like gluten in a coarse-grained model Eur. Biophys. J. (IF 2.0) Pub Date : 2023-06-28 Łukasz Mioduszewski
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A model for ribosome translocation based on the alternated displacement of its subunits Eur. Biophys. J. (IF 2.0) Pub Date : 2023-06-09 José S. González-García
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Determination of mRNA copy number in degradable lipid nanoparticles via density contrast analytical ultracentrifugation Eur. Biophys. J. (IF 2.0) Pub Date : 2023-06-08 Alexander Bepperling, Gesa Richter
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Pulling short DNA with mismatch base pairs Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-30 Navin Singh, Nehal Mathur
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Comparison of three AUC techniques for the determination of the loading status and capsid titer of AAVs Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-28 Alexander Bepperling, Janine Best
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Mechanistic insights of neuronal calcium and IP3 signaling system regulating ATP release during ischemia in progression of Alzheimer’s disease Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-24 Anand Pawar, Kamal Raj Pardasani
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SDS-induced hexameric oligomerization of myotoxin-II from Bothrops asper assessed by sedimentation velocity and nuclear magnetic resonance Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-20 Amy Henrickson, Tony Montina, Paul Hazendonk, Bruno Lomonte, Ana Gisele C. Neves-Ferreira, Borries Demeler
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Comparative sedimentation equilibrium analysis of two IgG1 glycoforms: IgGCri and IgGWid Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-17 Khalil Abu Hammad, Vlad Dinu, Thomas E. MacCalman, Jacob Pattem, Margaret Goodall, Richard B. Gillis, Roy Jefferis, Stephen E. Harding
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On the possibility of the existence of orienting hydrodynamic steering effects in the kinetics of receptor–ligand association Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-12 Jan M. Antosiewicz
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Rethinking the protein folding problem from a new perspective Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-10 Jorge A. Vila
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Sedimentation velocity FDS studies of antibodies in pooled human serum Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-09 J. J. Correia, G. R. Bishop, P. B. Kyle, R. T. Wright, P. J. Sherwood, W. F. Stafford
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Multi intercalators FRET enhanced detection of minute amounts of DNA Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-04 Luca Ceresa, Jose Chavez, Magdalena M. Bus, Bruce Budowle, Emma Kitchner, Joseph Kimball, Ignacy Gryczynski, Zygmunt Gryczynski
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Hydrodynamic characterization of a vesicular stomatitis virus-based oncolytic virus using analytical ultracentrifugation Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-03 Simon Wawra, Sophia Kessler, Arina Egel, Johannes Solzin, Oliver Burkert, Daniel Hochdorfer
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Optimizing high-throughput viral vector characterization with density gradient equilibrium analytical ultracentrifugation Eur. Biophys. J. (IF 2.0) Pub Date : 2023-05-02 Shawn M. Sternisha, Abraham D. Wilson, Emilie Bouda, Akash Bhattacharya, Ross VerHeul
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Analytical ultracentrifugation sedimentation velocity for the characterization of recombinant adeno-associated virus vectors sub-populations Eur. Biophys. J. (IF 2.0) Pub Date : 2023-04-28 Sylvie Saleun, Caroline Mas, Aline Le Roy, Magalie Penaud-Budloo, Oumeya Adjali, Véronique Blouin, Christine Ebel
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Strong non-ideality effects at low protein concentrations: considerations for elongated proteins Eur. Biophys. J. (IF 2.0) Pub Date : 2023-04-13 Alexander E. Yarawsky, Vlad Dinu, Stephen E. Harding, Andrew B. Herr
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Revealing the single-channel characteristics of OprD (OccAB1) porins from hospital strains of Acinetobacter baumannii Eur. Biophys. J. (IF 2.0) Pub Date : 2023-04-13 Aliakbar Ebrahimi, Tuğçe Ergün, Özge Kaygusuz İzgördü, Cihan Darcan, Hüseyin Avci, Barçin Öztürk, Hatice Rahmet Güner, Hamed Ghorbanpoor, Fatma Doğan Güzel
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AAV analysis by sedimentation velocity analytical ultracentrifugation: beyond empty and full capsids Eur. Biophys. J. (IF 2.0) Pub Date : 2023-04-10 Alexander E. Yarawsky, Valeria Zai-Rose, Hazel M. Cunningham, John W. Burgner, Michael T. DeLion, Lake N. Paul
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A new UltraScan module for the characterization and quantification of analytical buoyant density equilibrium experiments to determine AAV capsid loading Eur. Biophys. J. (IF 2.0) Pub Date : 2023-04-04 Alexey Savelyev, Emre H. Brookes, Amy Henrickson, Borries Demeler
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Investigation of dynamic solution interactions between NET-1 and UNC-5B by multi-wavelength analytical ultracentrifugation Eur. Biophys. J. (IF 2.0) Pub Date : 2023-03-20 Haben Gabir, Monika Gupta, Markus Meier, Fabian Heide, Manuel Koch, Joerg Stetefeld, Borries Demeler
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A spectral decomposition quality assessment tool for multi-wavelength AUC experiments with UltraScan Eur. Biophys. J. (IF 2.0) Pub Date : 2023-03-17 Saeed Mortezazadeh, Borries Demeler
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The effects of lithium on human red blood cells studied using optical spectroscopy and laser trap Eur. Biophys. J. (IF 2.0) Pub Date : 2023-03-17 Yashveer Singh, Aniket Chowdhury, Raktim Dasgupta, Shovan Kumar Majumder