Alzheimer's disease (AD) and Parkinson's disease (PD) are the two most common neurodegenerative diseases with markedly different pathological features of β-amyloid (Aβ) plaques and α-synuclein (αS) Lewy bodies (LBs), respectively. However, clinical overlaps in symptoms and pathologies between AD and PD are commonly observed caused by the cross-interaction between Aβ and αS. To uncover the molecular mechanisms behind their overlapping symptoms and pathologies, we computationally investigated the impact of αS on an Aβ monomer and dimerization using atomistic discrete molecular dynamics simulations (DMD). Our results revealed that αS could directly interact with Aβ monomers and dimers, thus forming β-sheet-rich oligomers, including potentially toxic β-barrel intermediates. The binding hotspot involved the second half of the N-terminal domain and NAC region in αS, along with residues 10-21 and 31-42 in Aβ. In their hetero-complex, the binding hotspot primarily assumed a β-sheet core buried inside, which was dynamically shielded by the highly charged, amyloid-resistant C-terminus of αS. Because the amyloid prion region was the same as the binding hotspot being buried, their fibrillization may be delayed, causing the toxic oligomers to increase. This study sheds light on the intricate relationship between Aβ and αS and provides insights into the overlapping pathology of AD and PD.
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http://dx.doi.org/10.1039/d3cp04138g | DOI Listing |
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January 2025
Department of Chemistry and the MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, P. R. China.
In this work, a site-selective functionalization strategy is proposed for modifying fluorescent dyes in the plasmonic nanopore, which highlights building optoelectronic dual-signal sensing interfaces at "hotspots" locations to construct multiparameter detection nanosensor. Finite-difference time-domain (FDTD) simulations confirmed the high-intensity electromagnetic field due to plasmonic nanostructure. It is demonstrated that adjusting the distance between the nanopore inner wall and fluorophore prevented the fluorescence quenching, resulting in more than a thirty fold fluorescence enhancement.
View Article and Find Full Text PDFMol Genet Genomic Med
January 2025
Department of Pediatrics, Taihe County People's Hospital, Fuyang, Anhui, China.
Background: Developmental and epileptic encephalopathies (DEEs) are a heterogeneous group of brain disorders. Variants in the Rho-related BTB domain-containing 2 gene (RHOBTB2) can lead to DEE64, which is characterized by early-onset epilepsy, varying degrees of motor developmental delay and intellectual disability, microcephaly, and movement disorders. More than half of the variants are located at Arg483 and Arg511 within the BTB domain; however, the underlying mechanism of action of these hotspot variants remains unexplored.
View Article and Find Full Text PDFCurr Opin Struct Biol
January 2025
Newcastle University Centre for Cancer, Translational and Clinical Research Institute, Newcastle University, Paul O'Gorman Building, Newcastle Upon Tyne, NE2 4HH, UK; Cancer Research Horizons Therapeutic Innovation, Newcastle Drug Discovery Group, Translational and Clinical Research Institute, Newcastle University, Paul O'Gorman Building, Newcastle Upon Tyne, NE2 4HH, UK. Electronic address:
Macromolecular X-ray crystallography allows detection and characterisation of the binding of small, low-affinity chemical fragments. Here we review the utility of fragment screening for drug discovery, its potential for use in discovery science, as well as some of the distinct types of fragments that have been compiled into libraries.
View Article and Find Full Text PDFLangmuir
January 2025
Department of Chemistry, SUNY Buffalo State University, 1300 Elmwood Ave., Buffalo, New York 14222, United States.
Here, we report a simple method to prepare near-IR (NIR) surface-enhanced Raman scattering (SERS) substrates by quickly freezing a citrate-capped Au nanoparticle (AuNP) solution in liquid nitrogen, followed by thawing it at room temperature. This process aggregates AuNPs in a controlled manner by forming ice crystals with smaller grain sizes when compared to a slow freezing process. The resulting smaller AuNP aggregates remain suspended in solution long enough to conduct high-throughput chemical analysis in a microwell plate using the NIR SERS spectroscopy.
View Article and Find Full Text PDFComput Struct Biotechnol J
December 2024
Department of Medicinal Chemistry, Institute of Pharmacy, Martin-Luther-University of Halle-Wittenberg, Halle (Saale) 06120, Germany.
Reliable in silico prediction of fragment binding modes remains a challenge in current drug design research. Due to their small size and generally low binding affinity, fragments can potentially interact with their target proteins in different ways. In the current study, we propose a workflow aimed at predicting favorable fragment binding sites and binding poses through multiple short molecular dynamics simulations.
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