Article
Chemistry, Multidisciplinary
Xun-Cheng Su, Bo Ma, Jia-Liang Chen, Chao-Yu Cui, Feng Yang, Yan-Jun Gong
Summary: This study demonstrates two rigid, reactive, and stable paramagnetic tags for protein modification, which exhibit high reactivity and rigidity for high-resolution NMR measurements of biological macromolecules and their complexes.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Chemistry, Multidisciplinary
Iresha D. Herath, Colum Breen, Sarah H. Hewitt, Thomas R. Berki, Ahmad F. Kassir, Charlotte Dodson, Martyna Judd, Shereen Jabar, Nicholas Cox, Gottfried Otting, Stephen J. Butler
Summary: The study introduces a new stable chiral Ln(III) tag, known as C12, for site-specific attachment to proteins, enabling protein probing through various spectroscopic techniques. The C12 tag exhibits enhanced reactivity towards selenocysteine, offering a pathway for selectively tagging selenocysteine in proteins containing cysteine residues. With Tb-III or Tm-III ions, the C12 tag can generate pseudocontact shifts in protein NMR spectra, providing a rigid tether between lanthanide and protein for interpretation of the shifts and distance measurements in double electron-electron resonance experiments. Additionally, the Tb-III complex upon reaction with cysteine or thiol compounds shows a significant enhancement in luminescence quantum yield, making it a sensitive luminescence probe for time-resolved FRET assays and enzyme reaction monitoring.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Chemistry, Physical
Xue-Ni Hou, Naotaka Sekiyama, Yasuko Ohtani, Feng Yang, Yohei Miyanoiri, Ken-ichi Akagi, Xun-Cheng Su, Hidehito Tochio
Summary: This study utilized paramagnetic NMR spectroscopy to investigate the conformational space of linear diubiquitin, revealing that the molecule prefers to sample particular regions of conformational space. By combining these findings with data on charge-reversal derivatives, structural insights into the binding events of linear diubiquitin were obtained.
Article
Biochemistry & Molecular Biology
Lara Rheinemann, Tuscan Thompson, Gaelle Mercenne, Elliott L. Paine, Francis C. Peterson, Brian F. Volkman, Steven L. Alam, Akram Alian, Wesley Sundquist
Summary: HIV, like many enveloped viruses, requires host cell machinery for assembly and budding through plasma membrane. Proteins like AMOT and NEDD4L promote virion membrane envelopment and release, with specific interaction between AMOT PPxY1 motif and NEDD4L WW3 domain critical for HIV-1 infectivity.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Biotechnology & Applied Microbiology
Sergio Enriquez-Flores, Jose Ignacio De la Mora-De la Mora, Luis Antonio Flores-Lopez, Nallely Cabrera, Cynthia Fernandez-Lainez, Gloria Hernandez-Alcantara, Carlos Enrique Guerrero-Beltran, Gabriel Lopez-Velazquez, Itzhel Garcia-Torres
Summary: This study reviewed the mutations made to the protease catalytic subunit of nuclear inclusion protein A from tobacco etch virus (TEVp) and created a mutant called TEVp7M. The mutant showed high purification yields and stability, and was able to cleave tagged proteins in commonly used affinity purification buffers.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Methanee Hiranyakorn, Maho Yagi-Utsumi, Saeko Yanaka, Naoya Ohtsuka, Norie Momiyama, Tadashi Satoh, Koichi Kato
Summary: We characterized the dynamic conformational interconversions of Lys48-linked ubiquitin chains, which involve both intermolecular and intramolecular interactions. The hydrophobic Ub-Ub interaction in diUb was reinforced by cysteine substitution of Lys48 of the distal Ub unit. Additionally, the mutational modification impacted the exposure of the most distal Ub unit in triUb.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Chemistry, Applied
Maude Ducrocq, Marie-Helene Morel, Marc Anton, Valerie Micard, Sylvain Guyot, Valerie Beaumal, Veronique Sole-Jamault, Adeline Boire
Summary: This study provides a detailed characterization of a leaf protein concentrate (LPC) extracted from Cichorium endivia leaves and reveals high protein content mainly composed of RuBisCO. The experimentally determined extinction coefficient and refractive index increment are higher than predicted values, and UV-visible absorption spectra suggest the presence of non-protein UV-absorbing species. Chromatographic separation indicates possible covalent binding of RuBisCO with phenolic compounds. LPC proteins show high solubility above pH 6, making it a potential functional food ingredient.
Article
Biochemistry & Molecular Biology
Madeleine Strickland, Susan Watanabe, Steven M. Bonn, Christina M. Camara, Mary R. Starich, David Fushman, Carol A. Carter, Nico Tjandra
Summary: The protein Tsg101 plays a critical role in viral budding and endocytic sorting. It has been found that Tsg101 can recognize both monoubiquitin and several diubiquitins, with a preference for K63-linked diubiquitin. Mutations in different binding sites of Tsg101 result in distinct phenotypes regarding the recruitment of its partners.
Article
Biochemistry & Molecular Biology
Arantza Zornoza, Itziar Velaz, Gustavo Gonzalez-Gaitano, Maria Cristina Martinez-Oharriz
Summary: This study investigated the complexation of GEM with β-CD and its derivatives under different conditions. Stable constants were determined using multiple techniques, and the advantages and drawbacks of each analytical technique were discussed. Additionally, the thermodynamic parameters of complexation were studied, and the complexation of solid dispersions was evaluated using X-ray diffraction.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Construction & Building Technology
B. Lothenbach, D. Jansen, Y. Yan, J. Schreiner
Summary: The structure and solubility of hydrothermally prepared 11 angstrom Al-tobermorite with Al/(Al + Si) = 0.1 were studied. The results showed the preferential uptake of Al in the branching sites of silicate chains, leading to an increased basal spacing of 11 angstrom Al-tobermorite. Solubility experiments indicated little effect of temperature on the solubility of 11 angstrom Al-tobermorite.
CEMENT AND CONCRETE RESEARCH
(2022)
Article
Chemistry, Multidisciplinary
Zhaofei Chai, Qiong Wu, Kai Cheng, Xiaoli Liu, Zeting Zhang, Ling Jiang, Xin Zhou, Maili Liu, Conggang Li
Summary: With the introduction of a high-sensitivity tag, proteins can be observed at atomic resolution in their native cellular environment, significantly expanding the scope of protein NMR.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Chemistry, Multidisciplinary
Rongfu Zhang, Timothy A. Cross, Xinhua Peng, Riqiang Fu
Summary: Understanding the dynamics and structure of water is crucial in biological systems. Directly probing the interfacial water in hydrated phospholipids is challenging, but a novel solid-state NMR technique was developed to successfully observe two distinct water species in the headgroup region of hydrated lipid bilayers. These findings provide an opportunity to study water dynamics on a millisecond or slower timescale in biomacromolecules.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Alexandra Shchukina, Pawel Malecki, Borja Mateos, Michal Nowakowski, Mateusz Urbanczyk, Georg Kontaxis, Pawel Kasprzak, Clara Conrad-Billroth, Robert Konrat, Krzysztof Kazimierczuk
Summary: NMR spectroscopy is a powerful but time-consuming method for studying protein structures and dynamics. A new approach involving joint sampling of indirect evolution times and temperature allows for efficient measurement of temperature coefficients in 3D spectra. This method provides effective determination of nonlinearities in proteins, showing potential for further insights into protein behavior.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Chemistry, Analytical
Alison Rodger, Timothy Chin
Summary: Circular dichroism spectroscopy is commonly used to analyze chiral structures in solution, especially protein secondary structure. This paper presents the validation of demountable DMV Bio-cells with different path lengths for CD spectroscopy. These cells require a smaller sample volume compared to standard cuvettes, are easy to clean, and less likely to be damaged.
ANALYTICAL METHODS
(2022)
Article
Chemistry, Applied
Kash A. Bhullar, Michael I. M. Horgan, Ashley Le, David Fania, Richard Wuhrer, Valentina Razmovski-Naumovski, Kelvin Chan, Patrice Castignolles, Marianne Gaborieau
Summary: This study characterized konjac glucomannan (KGM) in the solid state and quantified its average degree of acetylation (DA) for the first time. ATR-FTIR spectroscopy allowed fast qualitative assessment of acetylation, while solid-state C-13 NMR provided quantitative measurements of DA. This method could be used for quality control and standardization of KGM products.
CARBOHYDRATE POLYMERS
(2022)
Article
Biochemistry & Molecular Biology
Cristian Prieto-Garcia, Oliver Hartmann, Michaela Reissland, Thomas Fischer, Carina R. Maier, Mathias Rosenfeldt, Christina Schuelein-Voelk, Kevin Klann, Reinhard Kalb, Ivan Dikic, Christian Munch, Markus E. Diefenbacher
Summary: Squamous cell carcinomas (SCC) exhibit high mutational burden and platinum-based chemotherapy resistance, with increased Np63 expression associated with resistance; USP28 is recruited to sites of DNA damage and plays a regulatory role in DNA damage repair in SCC; Targeting the USP28- increment Np63 axis can overcome chemotherapy resistance in SCC.
CELL DEATH AND DIFFERENTIATION
(2022)
Review
Biochemistry & Molecular Biology
Andrea Gubas, Ivan Dikic
Summary: The endoplasmic reticulum (ER) is involved in many essential cellular processes, including ER-phagy. ER-phagy is a process that selectively degrades ER fragments to maintain ER size and morphology, and it relies on specialized ER-shaping proteins. This review provides insights into the membrane remodeling mechanisms of ER-phagy and emphasizes its significance in human physiology and pathology.
Article
Microbiology
Varnesh Tiku, Chun Kew, Eric M. Kofoed, Yutian Peng, Ivan Dikic, Man-Wah Tan
Summary: This study reveals that A. baumannii secretes an inflammatory bioactive lipid that activates multiple pro-inflammatory signaling pathways and induces cell death. This finding contributes to a better understanding of the immune mechanisms involved in A. baumannii infection.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Chemistry, Medicinal
Antonella Iudicello, Stefano Boschi, Pietro Ghedini, Frank Lohr, Stefano Panareo
Summary: [Ga-68]Ga-PSMA-11 PET/CT plays a pivotal role in the diagnosis and staging of prostate cancer due to its higher sensitivity and detection rate. Optimizing the radiochemical yield of the radiopharmaceutical is important for clinical activity planning and optimization. The presence of metal ion contaminants in the peptide precursor during radiometallation of PSMA-11 can decrease the radiochemical yield of [Ga-68]Ga-PSMA-11 due to competition with gallium-68.
Article
Oncology
Lena Kaestner, Yasser Abo-Madyan, Lena Huber, Manon Spaniol, Kerstin Siebenlist, Marie-Kristin Sacks, Michael Ehmann, Florian Stieler, Sven Clausen, Frank Lohr, Jens Fleckenstein, Judit Boda-Heggemann
ADVANCES IN RADIATION ONCOLOGY
(2022)
Review
Oncology
Alessia Di Rito, Francesco Fiorica, Roberta Carbonara, Francesca Di Pressa, Federica Bertolini, Francesco Mannavola, Frank Lohr, Angela Sardaro, Elisa D'Angelo
Summary: Oral cavity carcinoma (OCC) is a common malignant tumor with high risk of recurrence. The efficacy of postoperative chemotherapy in addition to radiotherapy (POCRT) for OCC with minor risk factors is controversial. A systematic review and meta-analysis were conducted, revealing that POCRT showed improved overall survival (OS) but inconclusive disease-free survival (DFS) and local-recurrence-free survival (LRFS). Further analysis is warranted.
Article
Medicine, General & Internal
Vincenzo Livio Malavasi, Jacopo Francesco Imberti, Alberto Tosetti, Giulio Francesco Romiti, Marco Vitolo, Massimo Zecchin, Ercole Mazzeo, De Marco Giuseppina, Frank Lohr, Teresa Lopez-Fernandez, Giuseppe Boriani
Summary: The prevalence of radiotherapy-induced CIEDs malfunctions ranges from 4% to 20%. The use of neutron-producing energies and more complex devices (ICD/CRT-D) are associated with a higher risk of device malfunction, while the radiation dose at CIED does not significantly impact the risk unless higher doses (>10 Gy) are used.
EUROPEAN JOURNAL OF CLINICAL INVESTIGATION
(2023)
Review
Cell Biology
Ivan Dikic, Brenda A. Schulman
Summary: Recent studies have advanced our understanding of ubiquitylation, revealing unconventional ubiquitylation mechanisms used by pathogens to promote infection. Structural studies have shown that ubiquitin functions involve complex multivalent interactions that regulate transcription or protein degradation. Furthermore, these interactions can induce conformational changes and regulate protein degradation or transcription. These newly discovered mechanisms provide potential opportunities for innovative therapeutic interventions for diseases such as cancer and infectious diseases.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
David A. Perez A. Berrocal, Thimmalapura M. Vishwanatha, Daniel Horn-Ghetko, J. Josephine Botsch, Laura A. Hehl, Sebastian Kostrhon, Mohit Misra, Ivan Dikic, Paul P. Geurink, Hans van Dam, Brenda A. Schulman, Monique P. C. Mulder
Summary: Protein post-translational modification with ubiquitin (Ub) is a versatile signal regulating cell biology, and diseases associated with impaired Ub modification present opportunities for novel targeted treatments. The final components of the ubiquitination cascade, E3 ligases, have potential as small molecule targets. UbSRhodol, an autoimmolative Ub-based probe, enables detection of changes in E3 transthiolation activity, making it suitable for high-throughput screening and identification of small molecules modulating E3 activity.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Editorial Material
Biochemistry & Molecular Biology
Angus I. Lamond, Ivan Dikic, Andre Nussenzweig, Christoph W. Mueller, Janet M. Thornton, Michael B. Yaffe
Article
Cell Biology
Anshu Bhattacharya, Rukmini Mukherjee, Santosh Kumar Kuncha, Melinda Elaine Brunstein, Rajeshwari Rathore, Stephan Junek, Christian Muench, Ivan Dikic
Summary: Acute lysosomal membrane damage reduces functional lysosomes, but they have a recovery potential independent of lysosomal biogenesis and remain unaffected in cells depleted in TFEB and TFE3. A lysosomal membrane regeneration pathway was discovered that depends on ATG8, LIMP2, TBC1D15, dynamin-2, kinesin-5B, and clathrin. LIMP2 acts as a lysophagy receptor, binding ATG8, which recruits TBC1D15 to damaged lysosomal membranes. TBC1D15 interacts with ATG8 proteins and stabilizes the autophagic lysosomal reformation machinery, promoting lysosomal tubule formation and dynamin-2-dependent scission.
NATURE CELL BIOLOGY
(2023)
Review
Immunology
Joao Mello-Vieira, Tobias Bopp, Ivan Dikic
Summary: Cell-autonomous immunity is the first line of defense for cells to recognize and eliminate invasive pathogens. Ubiquitination plays a crucial role in orchestrating immune signaling networks and stimulating the appropriate immune response. This review focuses on how ubiquitin connects pathogen sensing pathways to cellular responses and discusses therapeutic options for enhancing cell-autonomous immune responses.
CURRENT OPINION IN IMMUNOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Alessio Bruni, Federica Bertolini, Elisa D'Angelo, Giorgia Guaitoli, Jessica Imbrescia, Anna Cappelli, Gabriele Guidi, Alessandro Stefani, Massimo Dominici, Frank Lohr
Summary: Locally advanced non-small-cell lung cancer poses challenges in treatment choice and outcomes. Different treatments such as chemo-radiotherapy followed by immunotherapy or surgery followed by adjuvant therapies may yield similar results. We present a case of successful treatment for mediastinal nodal recurrence after thoracic surgery using sequential chemo-radiotherapy-immunotherapy. The patient also received stereotactic ablative radiotherapy for a single brain lesion. Comprehensive clinical data are needed to determine the role of combining systemic and local treatments in managing relapse after chemo-radiotherapy and immunotherapy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Alexis Gonzalez, Ivan Dikic
Meeting Abstract
Oncology
Alicia Haydo, Johanna Ertl, Jennifer Schmidt, Marina E. Hoffmann, Stephanie Hehlgans, Alisha Crider, Rajeshwari Rathore, Christel Herold-Mende, Ivan Dikic, Mingji Dai, Alexander Adibekian, Franz Roedel, Donat Koegel, Benedikt Linder
STRAHLENTHERAPIE UND ONKOLOGIE
(2023)
