Tsuruoka, K. Akamatsu, H.
NUCLEIC ACIDS RESEARCH
Tateishi-Karimata, N. Sugimoto, and D. Destabilization of DNA G-quadruplexes by chemical environment changes during tumor progression facilitates transcription.
Thermodynamic stability of Hoogsteen and Watson—Crick base pairs in the presence of histone H3-mimicking peptide. Unpaired region affecting hydration state of duplex.
Bypass of heterology during strand transfer by Saccharomyces cerevisiae Rad51 protein.
Molecular evolution of functional Nucleic Acids with chemical modifications. Molecular crowding of the cosolutes induces an intramolecular i-motif structure of triplet repeat DNA oligomers at neutral pH. Construction of detection system for amyloid beta peptide localization and aggregation using fluorescent and luminescent fusion proteins.
Sole and stable RNA duplexes of G-rich sequences located in the 5'-untranslated region of protooncogenes. Development of new functional nanostructures consisting of both DNA duplex and quadruplex. Stacking interaction in the middle and at the end of a DNA helix studied with non-natural nucleotides. DNA junction structure stabilized by molecular crowding conditions. Thermal stability and hydration state of DNA G-quadruplex regulated by loop regions. Facilitation of RNA enzyme activity in the molecular crowding media of cosolutes.
Thermodynamics of DNA structures under molecular crowding conditions with neutral and positive charged cosolutes. Molecularly imprinted nanocomposites for highly sensitive SPR detection of a non-aqueous atrazine sample.
Publications | Department of Biomedicine
Reversible stability switching of a hairpin DNA via a photo-responsive linker unit. An approach to peptide-based ATP receptors by a combination of random selection, rational design, and molecular imprinting. Neuronal differentiation of neural progenitor cells by intracellular delivery of synthetic oligopeptide derived from von Hippel-Lindau protein.
Dynamics and energetics of the base flipping conformation studied with base pair-mimic nucleosides. Investigations of the cation binding to nucleotides by monitoring the hairpin-duplex equilibrium of a self-complementary sequence. Enhanced amplification of polymerase chain reaction by addition of cosolutes derived from a cellular compatible solute. Molecular crowding effect on metal ion binding properties of the hammerhead ribozyme. Molecular crowding effects on structure and stability of DNA. Riboswitches for enhancing target gene expression in eukaryotes.
Recognition of a flipped base in a hairpinloop DNA by a small peptide. Conformation and the sodium ion condensation on DNA and RNA structures in the presence of a neutral cosolute as a mimic of the intracellular media. Hydration is an important factor to regulate thermodynamic stability of a DNA duplex under molecular crowding condtions.
Table of Contents
Design of allele-specific primers and detection of the human ABO genotyping to avoid the pseudopositive problem. Effects of cosolutes on the thermodynamic stability of parallel DNA duplex and triplex. Conformational switch of a functional nanowire based on the DNA G-quadruplex. Functionalization of DNA by the base pair-mimic nucleosides.
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The base-pairing ability of the base pair-mimic nucleosides. Influence of cationic molecules on the hairpin to duplex equilibria of self-complementary DNA and RNA oligonucleotides. Consecutive GC base pairs determine the energy barrier of DNA duplex formation under molecularly crowded conditions. Regulation of DNA nucleases by molecular crowding. Hydration regulates thermodynamic stability of DNA structures under molecular crowding conditions. Books etc Plain Text. Effect of ionic liquid and liposomes on the structure, stability, and function of nucleic acids.
RNA Structure Prediction. Analysis of the behavior of crowding molecules and their effects on DNAs at atomic level. Phase separation of RNA G-quadruplexes induced bycationic peptides. Screening of transcriptomic RNAs that interact with thioflavin T derivative. Effect of RNA topology on phase separation of peptides and proteins in neurodegenerative diseases. Topology-based DNA quadruplex sensors for characterization of intracellular crowding environments.
Prediction method for DNA duplex stability in molecular crowding conditions. Effects of malignant alteration in cancer cells on the DNA G-quadruplex formation and transcript mutations. In this pathway, proteins are targeted for degradation by covalent ligation to ubiquitin, a highly conserved small protein. Sequence of reactions in the proteolytic pathway.
Possible mechanisms of ubiquitin transfer by different types of E3 enzymes. See the text See the text. DB, destruction box. Mitochondria are essential organelles with numerous functions in cellular metabolism and homeostasis. Figure 1: Overview of the five major protein import pathways of mitochondria. Presequence-carrying preproteins are imported by the translocase of the outer mitochondrial membrane TOM and the presequ Figure 2: The presequence pathway into the mitochondrial inner membrane IM and matrix.
The translocase of the outer membrane TOM consists of three receptor proteins, the channel-forming protein To Figure 3: Role of the oxidase assembly OXA translocase in protein sorting.
Volume 82. Progress in Nucleic Acid Research and Molecular Biology
Proteins synthesized by mitochondrial ribosomes are exported into the inner membrane IM by the OXA translocase; the ribos Figure 4: Carrier pathway into the inner membrane. The precursors of the hydrophobic metabolite carriers are synthesized without a cleavable presequence. The precursors are bound to cytosolic chaperon Figure 5: Mitochondrial intermembrane space import and assembly MIA machinery.
Many intermembrane space IMS proteins contain characteristic cysteine motifs. The precursors are kept in a reduced an Figure 7: The dual role of mitochondrial distribution and morphology protein 10 Mdm10 in protein assembly and organelle contact sites. Mdm10 associates with the sorting and assembly machinery SAM The precursors of proteins with an N-terminal signal anchor sequence are typically inserted into Mic10 forms large oligomers th Recent genomic data have facilitated study of LPS The symbols indicate the relevant structural genes encoding each of the enzymes 2, A single enzyme catalyzes each reaction The paradigm is based mainly on studies of the human, mouse, and hamster immune cells and macrophage lines 12, Partial covalent modifications are indicated with the dashed bonds.
In accordance with the proposal of Reeves et al. This backbone tracing was made from protein data bank file 1JSQ Trans-membrane helices 1—6 are colored purple, blue, yellow, Following the MsbA-mediated transport at the inner membrane, additional proteins are likely to be involved in steps 2 and 3, but these have The outer cores are shown, together with one heptose residue of the inner core. The ligation si The structures and immunotypes have been reviewed elsewhere ,
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