Nucleic acid stain-dependent single strand conformation polymorphisms
BioTechniques, 2004 David R. McKee, M. Scott Thomson
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The Z-nucleic acid sensor ZBP1 in health and disease
Journal of Experimental Medicine, 2023 ZBP1 is an innate immune sensor for double-stranded nucleic acids adopting the Z conformation. Z-RNA/DNA is generated during viral infections and in autoinflammation and cancer.
J. Maelfait, J. Rehwinkel
semanticscholar +1 more source
Modelling aptamers with nucleic acid mimics (NAM): From sequence to three-dimensional docking
PLoS ONE, 2022 Aptamers are single-stranded oligonucleotides, formerly evolved by Systematic Evolution of Ligands by EXponential enrichment (SELEX), that fold into functional three-dimensional structures.
Ricardo Oliveira +5 more
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Developing Community Resources for Nucleic Acid Structures
Life, 2022 In this review, we describe the creation of the Nucleic Acid Database (NDB) at Rutgers University and how it became a testbed for the current infrastructure of the RCSB Protein Data Bank. We describe some of the special features of the NDB and how it has
Helen M. Berman +2 more
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Effects of 2'-O-methyl nucleotide substitution on EcoRI endonuclease cleavage activities. [PDF]
PLoS ONE, 2013 To investigate the effect of sugar pucker conformation on DNA-protein interactions, we used 2'-O-methyl nucleotide (2'-OMeN) to modify the EcoRI recognition sequence -TGAATTCT-, and monitored the enzymatic cleavage process using FRET method.
Guojie Zhao +4 more
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Optimizing scoring function of protein-nucleic acid interactions with both affinity and specificity. [PDF]
PLoS ONE, 2013 Protein-nucleic acid (protein-DNA and protein-RNA) recognition is fundamental to the regulation of gene expression. Determination of the structures of the protein-nucleic acid recognition and insight into their interactions at molecular level are vital ...
Zhiqiang Yan, Jin Wang
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Metal-Binding Antimicrobial Peptide SIF4 Kills Escherichia coli by Targeting Cytoplasmic Biomacromolecules without Cytoplasmic Membrane Damage: A Mechanistic Study [PDF]
Shipin Kexue, 2023 To explore how metal-binding antimicrobial peptide SIF4 kills foodborne Escherichia coli by targeting nucleic acid and protein in the cytoplasmic membrane without cytoplasmic membrane damage, the effect of SIF4 on intracellular nucleic acid biosynthesis ...
LI Yuzhen, XIAO Huaiqiu, LIU Miao, WANG Lin, ZENG Mengqi, ZHAO Mouming
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Structural basis of R-loop recognition by the S9.6 monoclonal antibody
Nature Communications, 2022 The S9.6 monoclonal antibody is widely used to map R-loops genome wide. Here, Bou-Nader et al., define the nucleic acid-binding specificity of S9.6 and report its crystal structures free and bound to a hybrid, which reveal the asymmetric recognition of ...
Charles Bou-Nader +4 more
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Engineering in Life Sciences, 2021 Ferritin is a promising drug delivery platform and has been functionalized through genetic modifications. This work has designed and expressed a dual‐functional engineered human heavy‐chain ferritin (HFn) with the inserted functional peptide PAS and RGDK
Shuang Yin +5 more
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Structure-based deep learning for binding site detection in nucleic acid macromolecules
NAR Genomics and Bioinformatics, 2021 Structure-based drug design (SBDD) targeting nucleic acid macromolecules, particularly RNA, is a gaining momentum research direction that already resulted in several FDA-approved compounds.
Igor Kozlovskii, Petr Popov
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