[9].Nowotny, M., et al., Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis. Cell, 2005. 121(7): p. 1005-16. [10].Nowotny, M., et al., Structure of human...
RecF途徑DNA拓樸異構酶活化誘導胞嘧啶核苷脫氨酶 R-loopRecF pathwayDNA topoisomeraseActivation-induced deaminase (AIDThe R-loop structure, an RNA-DNA hybrid with a single-stranded DNA region, has been observed during transcription elongation. However, the regulation and biological functions of R-loop ...
Structure of human RNase H1 complexed with an RNA/DNA hybrid: insight into HIV reverse transcription. Mol Cell, 2007, 28: 264–276 26 Ginno P A, Lott P L, Christensen H C, et al. R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters. Mol Cell, ...
G-quadruplex (G4) is a noncanonical secondary structure of DNA or RNA which can enhance or repress gene expression, yet the underlying molecular mechanism remains uncertain. Here we show that when positioned downstream of transcription start site, the orientation of potential G4 forming sequence (...
oneRNAstrand. In this structure, the RNA is base-paired to one of the DNA strands, while the otherDNA strandis unpaired. The name for this structure derives from the term ‘D-loop’ (displacement loop), which refers to the same structure, but in which all three strands consist of DNA....
The structure of the 6-nucleotide complementary target (6-nt match) complex reveals a 5-bp heteroduplex formed by the sgRNA seed sequence and TS DNA (Fig. 1b). Hybridization beyond the fifth seed sequence nucleotide is precluded by base stacking with the side chain of Tyr450, which was ...
1. R. P. Ghosh, B. J. Meyer, Spatial Organization of Chromatin: Emergence of Chromatin Structure During Development. Annu Rev Cell Dev Biol 37, 199-232 (2021). 2. T. Misteli, The Self-Organizing Genome: Principle...
In silico structure of THOC5 wild-type (WT) and RK mutant was generated using Phyre2. Electrostatic models are shown. (N) DNA-RNA duplexes C4D were incubated with recombinant GST-THOC6 WT and RK mutant. C4D–protein complexes were isolated using Streptavidin Sepharose beads. Both input and ...
Similarly, for the structural variant breakpoints, the downloaded structure variants data were intersected with the respective R-loop positive and negative genomic regions using ‘bedtools pairtobed’ function. After intersection, the SV breakpoints densities were calculated similarly as SNVs and indels...
DHX9 bound directly to two separate regions (3-2 and 3-3) within exon 3 of TUG1, probably due to the secondary structure of TUG1 in the cells (Fig. 3d). In contrast, pRPA32 directly interacted with TUG1 at the 5′ of exon 3 (3-1). Consistent with this, the biotinylated RNA ...