• Journal of the Korean Magnetic Resonance Society
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• v.21 no.2
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• pp.55-62
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• 2017

It is now well established that RNAs exhibit fundamental roles in regulating cellular processes. Many of these RNAs do not exist in a single conformation. Rather, they undergo dynamic transitions among many different conformations to mediate critical interactions with other biomolecules such as proteins, RNAs, DNAs, or small molecules. Here, we briefly review NMR techniques that describe the dynamic behavior of RNA by determining structural, kinetic, and thermodynamic properties.

• Proceedings of the Korean Vacuum Society Conference
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• 2016.02a
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• pp.140.1-140.1
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• 2016

We have measured DNA translocation through a nanocapillary functionalized with probe DNA. These DNA-functionalized nanocapillaries selectively facilitate the translocation of target ssDNAs that are complementary to the probe ssDNAs. In addition, translocation of the complementary target ssDNA exhibits two tendencies to translocation speed, such as fast and slow translocation, whereas that of non-complementary target ssDNA yields only one tendency, fast translocation. These observations suggest that the complementary and non-complementary target ssDNAs may be discriminated due to different interaction strengths between target and probe ssDNAs. The temperature dependence measurements of DNA translocation show that slow translocation events are ascribed to the complementary interaction between probe and target ssDNA. This confirms that their dwell time is dependent on the base-pair binding strength. These results demonstrate that mere single-base different target DNA can be selectively detectable by using the probe DNA-functionalized nanocapillaries.

• Mass Spectrometry Letters
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• v.2 no.3
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• pp.73-75
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• 2011

In the collisionally-activated dissociation of the proton-bound cluster ions of DNA base guanine (G) and cytosine (C), $G{\bullet}{\bullet}H^+{\bullet}{\bullet}C$, the abundance of [$CH^+$] ions was found to be higher than that of [$GH^+$] despite the fact that G has a higher proton affinity than C. This unexpected observation seems to demonstrate another example that the simple kinetic method scheme does not work. We suggest that a kinetic factor or detailed dynamics governing the proton transfer and dissociation should be carefully considered in the applications of the kinetic method to the proton affinity measurements.

• The Microorganisms and Industry
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• v.16 no.1
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• pp.7-17
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• 1990

In summary, the nature of the amino acid changes that impart oncogenicity in either the focus formation or tumorigenicity assay can be inferred by analysis of PCR-amplified DNA from tumor-derived NIH3T3 transformants and confirmed by analysis of primary liver tumors. Putative activating mutations in the c-K-ras genetic locus have been shown to involve a single-base modification of either G-C base pair at codon 12 leading to aspartate or cystein substitutions for glycine. The oncogenicity of an N-ras oncogene containing the N-ras C gene region may be related to an amino acid substitution of valine for glycine at codon 13.

• Proceedings of the Korean Society for Noise and Vibration Engineering Conference
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• 2014.10a
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• pp.358-360
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• 2014

For the several decades, various nanomaterials are broadly used in industry and research. With the growth of nanotechnology, the study of nanotoxicity is being accelerated. Particularly, mercury ion is widely used in real life. Because the mercury is representative high toxic material, it is highly recommended to detect the mercury ion. In previous reported work, thymine-thymine mismatches (T-T) capture mercury ion and create very stable base pair ($T-Hg^{2+}-T$). Here, we performed the high sensitive sensing method for direct label free detection of mercury ions and DNA binding using Kelvin Probe Force Microscope (KPFM). In this method, 30 base pairs of thymine (T-30) is used for mercury specific DNA binding ($T-Hg^{2+}-T$). KPFM is able to detect the mercury ion because there is difference between bare T-30 DNA and mercury mediated DNA ($T-Hg^{2+}-T$).

• Microbiology and Biotechnology Letters
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• v.24 no.4
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• pp.423-426
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• 1996

The complete nucleotide sequence of pKH6, a tetracycline-resistance (Tc$^{r}$) plasmid isolated from multi-drug resistant Staphylococcus aureus SA2, has been determined and compared with that of the staphylococcal Tc$^{r}$ plasmid pTl8l. The nucleotide sequences of the two plasmids are in agreement except for 7 nucleotides. All differences are caused by base pair substitutions. Among 6 substitutions, 3 occurred in coding regions. However, only two base substitutions in coding regions resulted in changes of amino acid sequences in two different ORFs of repC and Pre proteins.

• YAKHAK HOEJI
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• v.54 no.1
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• pp.67-74
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• 2010

Some of the benzopyrene (BP)-DNA adduct are known to build intercalated motif between flanking base pairs in damaged DNA depending on the structural condition. The size of benzopyrene itself is definitely not comparable with any of the DNA bases and thus the question whether the lesion of some base pair by insertion of benzopyrene can happen with or without a dramatic distortion of the helical structure is a highly interesting theme. In this work we used a molecular dynamics simulation based on the theory of molecular mechanics. The specific consequences about the structural properties of the intercalated structures and benzopyrene motif in minor groove of the double helix are deduced after 5 ns simulation time.

• The Transactions of the Korean Institute of Electrical Engineers
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• v.39 no.3
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• pp.273-280
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• 1990

To prevent the shoot-through phenomena in a PWM inverter, a short dead time is usually provided between a pair of switching transistors in the same leg of the inverter. In this approach, the amount of the dead time is designed to meet the worst case condition of the inverter transistors and the base drive elements. So, in normal cases, relatively large portion of the dead time is unnecessary and it results in an undesirablecurrent waveform distortion and generates ripple torque on the motor shaft. In this paper, a new base drive method to remove the undesirable portion of the dead time is described. The method senses the transistor on/off states to interlock the other transistor of the leg without the external dead time. Also, for the transistors of large current rating, the Darlington drive circuit is combined to the proposed method and is tested to verify the effectiveness. The experimental results of the proposed method are described and compared with those of the conventional dead time method.

• Bulletin of the Korean Chemical Society
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• v.19 no.4
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• pp.439-444
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• 1998

The protonation of tetraphenylporphyrin (TPP) in acidic organic solutions was analyzed by acid titrimetric and temperature-dependent absorption measurements. Competition between the protonation of free base TPP $(TPPH_2)$ and the solvation of proton by near solvent molecules determines the equilibrium of the diprotonated TPP $(TPPH_4^{2+})$ formation. The diprotonated TPP exists as an ion pair complex with the acid counterions, which are found to affect the degree of red shift of the Soret band. The rotation of the phenyl rings also plays an important role in the diprotonation, as suggested by the decrease in the degree of diprotonation for the fluorophenyl TPP derivatives whose phenyl ring rotation is significantly hindered relative to normal TPP. The difference of fluorescence lifetime between $TPPH_2 \;({\pi}_{FL}=19.6\;ns)\; and\; TPPH_4^{2+} \;({\pi}_{FL}=2.1 \;ns)$ was used advantageously to measure the rate of protonation in the excited state. The protonation of TPPH2 are found to occur much slower than the diffusion of protons from bulk solution to the porphyrin ring. The monoprotonated TPP is suggested to be the transient species for the diprotonation process.

• Journal of the Korean Magnetic Resonance Society
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• v.24 no.4
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• pp.117-122
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• 2020

Transcription factors are proteins that bind specific sites or elements in regulatory regions of DNA, known as promoters or enhancers, where they control the transcription or expression of target genes. MEIS1 protein is a DNA-binding domain present in human transcription factors and plays important roles in various biological functions. The hydrogen exchange rate constants of the imino protons were determined for the wild-type containing the consensus DNA-binding site for the MEIS1 and those of the mutant DNA duplexes using NMR spectroscopy. The G2A-, A3G- and C4T-mutant DNA duplexes lead to clear changes in thermal stabilities of these four consensus base pairs. These unique dynamic features of the four base pairs in the consensus 5'-TGAC-3' sequence might play crucial roles in the effective DNA binding of the MEIS1 protein.