Self-crowding influences the temperature – pressure stability of the human telomere G-quadruplex

Somkuti, Judit; Adányi, M.; Smeller, László

doi:10.1016/j.bpc.2019.106248

Cited by 11 publications

(20 citation statements)

References 43 publications

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“…Our earlier study on Htel showed a marked concentration dependence of the pressure sensitivity. In the concentration range comparable to the present study, -19 cm 3 /mol was found [15]. These were also FRET-based experiments.…”

Section: Resultssupporting

confidence: 90%

“…It was shown earlier that the high concentration of oligos can also change the volumetric aspects of the unfolding. This could be explained by the concentration-dependent shift of the competing conformations [ 15 , 43 ], or by the possible intermolecular interactions and a consequent stacking of the GQs [ 44 , 45 ].…”

Section: Resultsmentioning

confidence: 99%

“…This underlines the importance of the volume occupied by the macromolecules in a different conformational state. This volume effect has been well studied for proteins [ 11 , 12 , 13 , 14 ], but the number of studies on DNA molecules is quite limited [ 15 , 16 ]. The reason could be the pressure insensitivity of the DNA due to the fact that the double-helical DNA shows little to no volume effect during unwinding.…”

Section: Introductionmentioning

confidence: 99%

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Negative volume changes of human G-quadruplexes at unfolding

Molnár

Somkuti

Smeller

2020

Heliyon

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G-quadruplexes are tetrahelical structures. They are important targets for anti-cancer drugs, since they are situated at crucial positions within the genome. We studied the volumetric properties of the unfolding of three G-quadruplexes in the presence of potassium ion. The unfolding volume changes were determined using high-pressure fluorescence spectroscopy. The c-MYC, KIT, and VEGF sequences unfold with the transition volume of -17, -6 and -18 cm 3 /mol, respectively. The small magnitude of the unfolding volume of KIT could be explained by its unique structure and the lower amount of void volume. Since the cell interior is highly crowded, the available volume is restricted. Therefore the volumetric changes during the conformational transformations gain biological importance.

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Section: Resultssupporting

confidence: 90%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Negative volume changes of human G-quadruplexes at unfolding

Molnár

Somkuti

Smeller

2020

Heliyon

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“…Fluorescence experiments were performed as described earlier in details [25,42]. Fluorolog-FL3 fluorimeter (Horiba Jobin Yvon, Longjumeau, France) was used mainly for the temperature scans.…”

Section: Methodsmentioning

confidence: 99%

“…Transition temperatures around 50 • C are typical for two-quartet GQs. As for the unfolding temperature of the two-quartet thrombin-binding aptamer (TBA), 53 • C was measured [41], while the three-quartet Htel unfolds at around 65 • C [42,49]. This means that either HepB2 does not form a three-quartet GQ, or it was somehow destabilized.…”

Section: Temperature Stability Of Hepb1-3 Detected By Fretmentioning

confidence: 99%

Pressure Perturbation Studies of Noncanonical Viral Nucleic Acid Structures

Somkuti

Molnár

Grád

et al. 2021

Biology

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G-quadruplexes are noncanonical structures formed by guanine-rich sequences of the genome. They are found in crucial loci of the human genome, they take part in the regulation of important processes like cell proliferation and cell death. Much less is known about the subjects of this work, the viral G-quadruplexes. We have chosen three potentially G-quadruplex-forming sequences of hepatitis B. We measured the stability and the thermodynamic parameters of these quadruplexes. We also investigated the potential stabilization of these G-quadruplexes by binding a special ligand that was originally developed for cancer therapy. Fluorescence and infrared spectroscopic measurements were performed over wide temperature and pressure ranges. Our experiments indicate the small unfolding volume change of all three oligos. We found a difference between the unfolding of the 2-quartet and the 3-quartet G-quadruplexes. All three G-quadruplexes were stabilized by TMPyP4, which is a cationic porphyrin developed for stabilizing the human telomere.

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Crowding and confinement effects on enzyme stability in mesoporous silicas

Shin¹,

Kim

et al. 2020

International Journal of Biological Macromolecules

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Self-crowding influences the temperature – pressure stability of the human telomere G-quadruplex

Cited by 11 publications

References 43 publications

Negative volume changes of human G-quadruplexes at unfolding

Negative volume changes of human G-quadruplexes at unfolding

Pressure Perturbation Studies of Noncanonical Viral Nucleic Acid Structures

Crowding and confinement effects on enzyme stability in mesoporous silicas

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