Article
Chemistry, Physical
Akhil Jain, Gustavo F. Trindade, Jacqueline M. Hicks, Jordan C. Potts, Ruman Rahman, Richard J. M. Hague, David B. Amabilino, Lluisa Perez-Garcia, Frankie J. Rawson
Summary: Protein orientation on the surface of nanoparticles plays a crucial role in modulating their biological activity, and can be altered by changing the adsorption orientation. This has important implications for the design of new nanoscale biosensors and nanomedicines.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Ariel K. Frederick, Sidney L. Thompson, Zahra M. Vakharia, Melisa M. Cherney, Haotian Lei, Garrett Evenson, Bruce E. Bowler
Summary: Naturally-occurring variants of human cytochrome c with altered omega-loop C enhance peroxidase activity by destabilizing omega-loops C and D. We identified coevolving sites in omega-loop C between yeast iso-1-Cytc and human Cytc and found that these residues decrease the peroxidase activity of iso-1-Cytc. Structural fluctuations in the loop regions are important for the intrinsic peroxidase activity of Cytc.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Huijie Han, Jie Chen, Jiachen Li, Alexandra Correia, Raquel Bartolo, Mohammad-Ali Shahbazi, Tambet Teesalu, Shiqi Wang, Wenguo Cui, Helder A. Santos
Summary: Apoptosis is a programmed cell death process responsible for abnormal cell clearance. Cancer cells often develop mechanisms to escape apoptosis, posing a challenge in cancer treatment. A biomimetic lipid nanocarrier that mimics mitochondrial Cytochrome C binding has been developed. This nanocarrier shows great potential in pro-apoptosis cancer therapy, reducing ATP level and promoting apoptosome assembly, leading to higher apoptosis and anti-tumor efficacy.
ADVANCED FUNCTIONAL MATERIALS
(2023)
Article
Cell Biology
Rabia Ramzan, Amalia M. Dolga, Susanne Michels, Petra Weber, Carsten Culmsee, Ardawan J. Rastan, Sebastian Vogt
Summary: This study investigates the effects of ATP inhibition on cytochrome c oxidase (CytOx) in isolated rat heart mitochondria. The findings suggest that inhibiting CytOx activity with ATP leads to static respiration and decreased ROS production, highlighting the importance of ATP/ADP ratio for mitochondrial function.
Article
Engineering, Environmental
Bao-Cheng Huang, Gui-Feng Li, Zhi-Qi Ren, Xiao-Ming Ji, Ye Wang, Ye-Nan Gu, Jing-Peng Li, Rong-Rong Chang, Nian-Si Fan, Ren-Cun Jin
Summary: Nonphotosynthetic microorganisms can indirectly utilize light energy to change their metabolic pathways by forming intermediates such as reactive oxygen species (ROS). High intensity light (>20000 lx) inhibits anammox activity, while 200 lx light unexpectedly promotes the nitrogen conversion rate with ultraviolet light (<420 nm) as the main contributor. Photoinduced trace H2O2 triggers cytochrome c peroxidase expression, facilitating electron uptake and nitrogen dissimilation. These findings provide insights into the niche differentiation and widespread nature of anammox bacteria.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Agriculture, Multidisciplinary
Bo Zou, Qianqian Yu, Lele Shao, Yingying Sun, Xingmin Li, Ruitong Dai
Summary: Lipid molecules play a crucial role in mitochondria-mediated apoptosis. This study reveals that the levels of mitochondrial lipids increase during early postmortem, accelerating apoptosis in beef muscle. The psoas major muscle has a higher degree of apoptosis and more severe muscle oxidation and antioxidant system damage compared to the longissimus lumborum muscle.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Cell Biology
Rabia Ramzan, Jorg Napiwotzki, Petra Weber, Bernhard Kadenbach, Sebastian Vogt
Summary: Cytochrome c oxidase (CytOx), the key enzyme involved in mitochondrial respiration, binds with ADP and ATP, which can be exchanged by cholate. The use of sodium cholate detergent in isolating CytOx induces structural changes and turns off the allosteric ATP-inhibition, revealing insights into the enzyme's role in energy production.
Article
Pharmacology & Pharmacy
Cristian Silviu Moldovan, Anca Onaciu, Valentin Toma, Radu Marginean, Alin Moldovan, Adrian Bogdan Tigu, Gabriela Fabiola Stiufiuc, Constantin Mihai Lucaciu, Rares Ionut Stiufiuc
Summary: A method using carbon quantum dots smaller than 5 nm synthesized from sodium citrate and polyethylene imine was successfully employed to detect the release of Cyt c. Significant drops in fluorescence intensity were observed in cells treated with apoptosis-inducing therapeutic compounds, confirming the release of Cyt c from mitochondria to cytosol. This method could potentially contribute to an indirect in vitro evaluation of apoptosis.
Article
Biochemistry & Molecular Biology
Rony Abdi Syahputra, Urip Harahap, Yahdiana Harahap, Andayana Puspitasari Gani, Aminah Dalimunthe, Amer Ahmed, Satirah Zainalabidin
Summary: This study aimed to analyze the effects of doxorubicin on cardiac histology and investigate the protective effect of compounds from Vernonia amygdalina against cardiac toxicity. The results showed that compounds from Vernonia amygdalina could protect the heart from doxorubicin toxicity by reducing the expression of TGF, cytochrome c, and apoptosis.
Article
Medicine, Research & Experimental
Kai-Yue Cao, Tong-Meng Yan, Ji-Zhou Zhang, Ting-Fung Chan, Jie Li, Chong Li, Elaine Lai-Han Leung, Jin Gao, Bao-Xian Zhang, Zhi-Hong Jiang
Summary: This study reveals a new role of plant-derived tRFs in regulating endogenous genes and provides insights into the discovery of unknown molecular targets for therapeutics.
MOLECULAR THERAPY-NUCLEIC ACIDS
(2022)
Article
Chemistry, Analytical
Xin Xu, Peng Luo, Huan Yang, Shuang Pan, Hui Liu, Xiaoli Hu
Summary: This study introduces a facile method for fabricating metal-ATP nanoparticles and demonstrates that the enzyme-like activities of these nanoparticles can be modulated by metal doping. The CuMnFe-ATP NPs exhibit multiple enzyme-like activities, showing potential applications in the field of biosensing.
SENSORS AND ACTUATORS B-CHEMICAL
(2021)
Article
Environmental Sciences
Libing Yu, Wenjing Li, Jian Chu, Chun Chen, Xijian Li, Wei Tang, Binyuan Xia, Zhonghua Xiong
Summary: Uranium as an emerging pollutant presents serious threats to ecological and human health, with the kidney identified as a major deposition site and sensitive target organ for its toxicity, which is associated with oxidative stress and mitochondrial respiration. This study found that cytochrome c oxidase and ATP synthase play key roles in uranium-induced toxicity by inhibiting their activities in the mitochondrial respiration pathway. These inhibitory effects could explain the generation of reactive oxygen species and mitochondrial alterations observed in uranium poisoning.
ENVIRONMENTAL POLLUTION
(2021)
Article
Nanoscience & Nanotechnology
Weina Zhang, Pu Liu, Guowei Yang, Hongxiang Lei
Summary: Nanowires fabricated from polylactic acid (PLA) using a direct drawing method exhibit high optical transparency, good biocompatibility, biodegradability, and flexibility. The nanowires achieved ultra-low concentration sensing of cytochrome c with a detection limit of 1.38 x 10(-17) M, much lower than other semiconductor/metal-based nanosensors. Additionally, they enable label-free, real-time monitoring of cell apoptosis and pH sensing through quantum dot doping. These results highlight the potential of PLA nanowires in multifunctional biosensing and biodetection, advancing the field of photomedicine.
ACS APPLIED MATERIALS & INTERFACES
(2021)
Article
Biochemistry & Molecular Biology
Sarita Yadav, Neha Sawarni, Preeti Kumari, Minakshi Sharma
Summary: Cytochrome c plays a crucial role in the mitochondrial electron transport chain and can be used as a biomarker to measure mitochondrial damage and various diseases. The level of cytochrome c in the bloodstream is associated with cellular diseases and can be used to predict disease progression by analyzing serum samples.
PROCESS BIOCHEMISTRY
(2022)
Article
Chemistry, Analytical
Bo Liu, Jingjing Li, Ping Zhou, Wei Pan, Na Li, Bo Tang
Summary: This study developed a nanoprobe based on the gold-selenium bond for fluorescence imaging of apoptotic signaling molecules in real-time, showing good specificity and stability. The probe can avoid interference from biological thiols and image the sequential changes of markers during cell apoptosis.
ANALYTICAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Giovanna De Simone, Alessandra di Masi, Gian Marco Vita, Fabio Polticelli, Alessandra Pesce, Marco Nardini, Martino Bolognesi, Chiara Ciaccio, Massimo Coletta, Emily Samuela Turilli, Mauro Fasano, Lorenzo Tognaccini, Giulietta Smulevich, Stefania Abbruzzetti, Cristiano Viappiani, Stefano Bruno, Paolo Ascenzi
ANTIOXIDANTS & REDOX SIGNALING
(2020)
Article
Biochemistry & Molecular Biology
Giovanna De Simone, Andrea Pasquadibisceglie, Fabio Polticelli, Alessandra di Masi, Paolo Ascenzi
Summary: Haptoglobin related protein (Hpr) is a component of the trypanosome lytic factor (TLF) and plays a critical role in the innate immune response against African trypanosomes. Unlike haptoglobin (Hp), Hpr does not bind the CD163 receptor, but retains the N-terminal signal peptide necessary for association with Apolipoprotein L-1 (ApoL-1). The structural analysis shows that Hpr:Hpr dimerization and recognition by hemoglobin and the Trypanosoma brucei brucei Hp receptor (TbHpHbR) are different from those of Hp:Hp, Hp:Hb, and TbHpHbR:Hp:Hb complexes.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Giovanna De Simone, Andrea Pasquadibisceglie, Alessandra di Masi, Valeria Buzzelli, Viviana Trezza, Gabriele Macari, Fabio Polticelli, Paolo Ascenzi
Summary: Anticoagulant therapy is widely used for preventing and treating thromboembolic events, with the development of direct oral anticoagulants (DOACs) in recent years. Research indicates that DOACs bind to human serum albumin and may form complexes in vivo, highlighting the importance of HSA as a determinant for DOACs transport.
JOURNAL OF MOLECULAR RECOGNITION
(2021)
Article
Biochemistry & Molecular Biology
Francesca Ripanti, Almerinda Di Venere, Mariangela Cestelli Guidi, Martina Romani, Alessandra Filabozzi, Marina Carbonaro, Maria Cristina Piro, Federica Sinibaldi, Alessandro Nucara, Giampiero Mei
Summary: This study used infrared and fluorescence spectroscopy to investigate the interaction of cytochrome c with cardiolipin, revealing a multi-phase process involving protein-lipid interaction, protein anchorage on the membrane surface, and a long-distance order/disorder transition of cardiolipin acyl chains. These effects were quantitatively interpreted with specific order parameters and discussed in the context of previous models on cytochrome c activity.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Valentina Brandi, Fabio Polticelli
Summary: Huntington's disease is caused by a mutation in the huntingtin gene, resulting in abnormal protein aggregation. Analysis of Htt homologs can help understand the functional conservation of Htt in different eukaryotes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Jorge Cantero, Fabio Polticelli, Margot Paulino
Summary: This study reveals the interaction between citrus CCD4 enzymes and thylakoid membranes, showing a clear preference for xanthophyll substrates and the ability to extract pigments directly from the membrane through a hydrophobic residue channel.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Grazia Raffaella Tundo, Diego Sbardella, Francesco Oddone, Giuseppe Grasso, Stefano Marini, Maria Grazia Atzori, Anna Maria Santoro, Danilo Milardi, Francesco Bellia, Gabriele Macari, Grazia Graziani, Fabio Polticelli, Paolo Cascio, Mariacristina Parravano, Massimo Coletta
Summary: Carfilzomib has been found to target Insulin-Degrading Enzyme (IDE) in vitro, which has interactions with proteasomes in cells. The inhibitory effect of Carfilzomib on IDE is 10-fold lower than on 20S proteasomes. Additionally, the interaction of IDE with 20S enhances the inhibitory power of Carfilzomib on proteasomes. Silencing the IDE gene significantly reduces the cytotoxicity of Carfilzomib in rMC1 cells.
Article
Biochemistry & Molecular Biology
Emiliano Fratini, Marianna Nicoletta Rossi, Lucrezia Spagoni, Alessandra Riccieri, Emiliano Mancini, Fabio Polticelli, Marco Alberto Bologna, Paolo Mariottini, Manuela Cervelli
Summary: Protease inhibitors, especially Kunitz-type protease inhibitors, are being widely studied as potential new drugs due to their reversible nature and minimal side effects. Further validation is required to consider these molecules for medical use.
Article
Biochemistry & Molecular Biology
Andrea Pasquadibisceglie, Virginia Quadrotta, Fabio Polticelli
Summary: The Carnitine-Acylcarnitine Carrier plays a crucial role in the exchange of acylcarnitine and carnitine in mitochondria. This study analyzes the structural dynamics and early substrate recognition of SLC25A20 using modeling techniques, molecular dynamics, and molecular docking. The results reveal asymmetry in conformational changes and provide insights into the pathogenic mutations and the substrates recognition mechanism.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Emiliana Farina, Hellen Daghero, Mariela Bollati-Fogolin, Eduardo Boido, Jorge Cantero, Mauricio Moncada-Basualto, Claudio Olea-Azar, Fabio Polticelli, Margot Paulino
Summary: The antioxidant phenolics composition, antioxidant capacity, and anti-inflammatory properties of six Uruguayan red grape pomaces were evaluated. Results showed that Tannat grape pomaces have higher phenolic content and antioxidant capacity compared to Cabernet Franc. These extracts exhibited inhibitory effects on TNF-alpha mediated NF-κB activation and IL-8 production, suggesting potential anti-inflammatory bioactivity.
Article
Biochemistry & Molecular Biology
Matteo Amadei, Antonella Niro, Maria Rosaria Fullone, Rossella Miele, Fabio Polticelli, Giovanni Musci, Maria Carmela Bonaccorsi di Patti
Summary: Ferroportin (Fpn), a member of the major facilitator superfamily (MFS) of transporters, is the only known iron exporter found in mammals and plays a crucial role in regulating cellular and systemic iron levels. In this study, a fluorescent amino acid (DA) was introduced into specific positions of human Fpn to investigate conformational changes during metal translocation. The results indicate metal-induced conformational transitions, providing insights into the alternating access mechanism of Fpn and advancing our understanding of iron transport.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
Andrea Pasquadibisceglie, Maria Carmela Bonaccorsi di Patti, Giovanni Musci, Fabio Polticelli
Summary: This passage mainly describes the importance of iron in biology and the regulation of intracellular and extracellular iron levels through transport systems.
Article
Mathematical & Computational Biology
Daniele Toti, Gabriele Macari, Enrico Barbierato, Fabio Polticelli
Summary: This work presents a graph database called Fragment Graph DataBase (FGDB), which contains ligand fragments extracted and generated from the Protein Data Bank (PDB). The database aims to support and facilitate fragment-based drug design by providing users with a comprehensive collection of fragments and query capabilities. Two sample use cases involving proteins of high biomedical relevance for cancer therapy are also presented.
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION
(2022)
Review
Mathematical & Computational Biology
Andrea Pasquadibisceglie, Fabio Polticelli
Summary: The members of the mitochondrial carrier family, also known as SLC25, play a crucial role in regulating the transport of small molecules within mitochondria. Experimental studies on these transporters can be challenging, leading to the use of computational methods to develop hypotheses or explain experimental evidence. Computational analyses have provided insights into the structure-function relationships of these proteins and suggest potential applications of advanced computational methods in the future.
BIO-ALGORITHMS AND MED-SYSTEMS
(2021)
Article
Oncology
M. Mancini, A. Cappello, R. Pecorari, A. M. Lena, M. Montanaro, L. Fania, F. Ricci, G. Di Lella, M. C. Piro, D. Abeni, E. Dellambra, A. Mauriello, G. Melino, E. Candi
Summary: The study identified a regulatory pathway involving lncRNA uc.291 in controlling the expression of epidermal differentiation genes, suggesting a potential role in cSCC tumorigenesis. Alteration of this pathway may contribute to de-differentiation of tumors and provide direction for clinical biomarker identification.
Article
Biochemistry & Molecular Biology
Yuri Nagaoka, Kotone Oshiro, Yuta Yoshino, Toshiyuki Matsunaga, Satoshi Endo, Akira Ikari
Summary: This study investigated the effect of intercellular adhesion molecule CLDN1 on the anticancer drug sensitivity of small-cell lung cancer (SCLC) cells. It was found that overexpression of CLDN1 decreased the sensitivity of SCLC cells to anticancer drugs and enhanced their migratory capacity through the activation of the TGF-81/EMT signaling pathway. Treatment with EMT inhibitors showed potential in overcoming the reduced sensitivity to anticancer drugs in CLDN1-overexpressing SCLC cells.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2024)