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Structural dynamics in chromatin unraveling by pioneer transcription factors
Pioneer transcription factors are proteins with a dual function. First, they regulate transcription by binding to nucleosome-free DNA regulatory...
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Special issue: Multiscale simulations of DNA from electrons to nucleosomes
This editorial for Volume 16, Issue 3 of Biophysical Reviews highlights the three-dimensional structural and dynamic information encoded in DNA...
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cBAF generates subnucleosomes that expand OCT4 binding and function beyond DNA motifs at enhancers
The canonical BRG/BRM-associated factor (cBAF) complex is essential for chromatin opening at enhancers in mammalian cells. However, the nature of the...
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Structural basis of MALAT1 RNA maturation and mascRNA biogenesis
The metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) long noncoding RNA (lncRNA) has key roles in regulating transcription, splicing,...
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Analysis of proteins in the light of mutations
Proteins have evolved through mutations—amino acid substitutions—since life appeared on Earth, some 10 9 years ago. The study of these phenomena has...
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Single-base tiled screen unveils design principles of PspCas13b for potent and off-target-free RNA silencing
The development of precise RNA-editing tools is essential for the advancement of RNA therapeutics. CRISPR (clustered regularly interspaced short...
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Asymmetric apical domain states of mitochondrial Hsp60 coordinate substrate engagement and chaperonin assembly
The mitochondrial chaperonin, mitochondrial heat shock protein 60 (mtHsp60), promotes the folding of newly imported and transiently misfolded...
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Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy
During formation of the transcription-competent open complex (RPo) by bacterial RNA polymerases (RNAPs), transient intermediates pile up before...
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Structure-based prediction of protein-nucleic acid binding using graph neural networks
Protein-nucleic acid (PNA) binding plays critical roles in the transcription, translation, regulation, and three-dimensional organization of the...
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Control of mitophagy initiation and progression by the TBK1 adaptors NAP1 and SINTBAD
Mitophagy preserves overall mitochondrial fitness by selectively targeting damaged mitochondria for degradation. The regulatory mechanisms that...
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Structural and mechanistic basis for nucleosomal H2AK119 deubiquitination by single-subunit deubiquitinase USP16
Epigenetic regulators have a crucial effect on gene expression based on their manipulation of histone modifications. Histone H2AK119...
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Structural basis of tRNA recognition by the m3C RNA methyltransferase METTL6 in complex with SerRS seryl-tRNA synthetase
Methylation of cytosine 32 in the anticodon loop of tRNAs to 3-methylcytosine (m 3 C) is crucial for cellular translation fidelity. Misregulation of...
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Computational discovery of dual potential inhibitors of SARS‐CoV‐2 spike/ACE2 and Mpro: 3D-pharmacophore, docking-based virtual screening, quantum mechanics and molecular dynamics
To find drugs against COVID-19, caused by the SARS-CoV-2, promising targets include the fusion of the viral spike with the human...
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Structures of synaptic vesicle protein 2A and 2B bound to anticonvulsants
Epilepsy is a common neurological disorder characterized by abnormal activity of neuronal networks, leading to seizures. The racetam class of...
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Multivalent interactions of the disordered regions of XLF and XRCC4 foster robust cellular NHEJ and drive the formation of ligation-boosting condensates in vitro
In mammalian cells, DNA double-strand breaks are predominantly repaired by non-homologous end joining (NHEJ). During repair, the Ku70–Ku80...
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Structural basis for the dynamic chaperoning of disordered clients by Hsp90
Molecular chaperone heat shock protein 90 (Hsp90) is a ubiquitous regulator that fine-tunes and remodels diverse client proteins, exerting profound...
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DNA simulation benchmarks revealed with the accumulation of high-resolution structures
DNA carries more than the list of biochemical instructions that drive the basic functions of living systems. The sequence of base pairs includes a...
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