Interaction of hemin with quadruplex DNA

Nasab, Maryam Ghahremani; Hassani, Leila; Nejad, Sara Mohammadi; Norouzi, Davood

doi:10.1007/s10867-016-9430-7

Cited by 24 publications

(12 citation statements)

References 27 publications

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“…Therefore, K + in general is preferred over Na + in G4 formation. Another study conducted also showed in the presence of KCl, the activity doubled that of NaCl [24].…”

Section: The Basic Structure Of G-quadruplexmentioning

confidence: 99%

G-Quadruplexes as An Alternative Recognition Element in Disease-Related Target Sensing

et al. 2019

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G-quadruplexes are made up of guanine-rich RNA and DNA sequences capable of forming noncanonical nucleic acid secondary structures. The base-specific sterical configuration of G-quadruplexes allows the stacked G-tetrads to bind certain planar molecules like hemin (iron (III)-protoporphyrin IX) to regulate enzymatic-like functions such as peroxidase-mimicking activity, hence the use of the term DNAzyme/RNAzyme. This ability has been widely touted as a suitable substitute to conventional enzymatic reporter systems in diagnostics. This review will provide a brief overview of the G-quadruplex architecture as well as the many forms of reporter systems ranging from absorbance to luminescence readouts in various platforms. Furthermore, some challenges and improvements that have been introduced to improve the application of G-quadruplex in diagnostics will be highlighted. As the field of diagnostics has evolved to apply different detection systems, the need for alternative reporter systems such as G-quadruplexes is also paramount.

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“…Therefore, K + in general is preferred over Na + in G4 formation. Another study conducted also showed in the presence of KCl, the activity doubled that of NaCl [24].…”

Section: The Basic Structure Of G-quadruplexmentioning

confidence: 99%

G-Quadruplexes as An Alternative Recognition Element in Disease-Related Target Sensing

et al. 2019

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“…This method has been used in much more studies as interaction of molecules and adsorption effects of different molecules and elements on the different surfaces [15][16][17][18][19][20][21][22][23][24][25][26][27][28][29]. Many authors also, in order to understand the biological and anticancer activity of certain drugs inevitably, have studied the physicochemical properties using DFT method [30][31][32][33][34][35][36][37][38][39][40][41].…”

Section: Original Research Articlementioning

confidence: 99%

Study of bendamustine anticancer drug in gaseous and in a few selected liquid solvents phases using functional density theory (DFT)

Deilam

Ghasemi

Ашрафи

2019

Eurasian Chem. Commun.

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In this research, bendamustine anticancer drug in main and excited states in gaseous phase and in water and ethanol and methanol solvent phases have been studied, using DFT at MPW1PW91/6-311++G(d, p) theoretical level. The molecules of solvent affected the equilibrium structure of species. The effects of solvents have been studied by polarized continuum model (PCM). The optimized structural parameters in gaseous and in water, ethanol and methanol solvent phases as frequency data, relative energy, dipole moment, the energy of highest occupied molecular orbital (HOMO), the energy of lowest unoccupied molecular orbital (LUMO), density functional graphs and gap energies have been calculated. The results of the theoretical computations confirm that the structure of drug, in both the main and the excited states, is more stable in liquid phase than in gaseous phase, and most stable in water. The computation results confirm that the drug stability increase by increasing in polarizability of the solvent.

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“…A DNAzyme with peroxidase activity is a well-known DNA enzyme and has been shown to adopt G-quadruplex structures. Hemin, a porphyrin, can non-covalently bind to the G-quadruplex which enhances the peroxidase activity of hemin (Kosman and Juskowiak, 2011;Ghahremani Nasab et al, 2017). This property of hemin conjugated to DNA quadruplex has been used as a strategy in screening ligands of Gquadruplex for a variety of applications which range from singlenucleotide polymorphisms to proteins and nucleic acids and also in drug discovery and diagnostics employing colorimetric or visual detection strategies and also as electrochemical sensors (Cheglakov et al, 2006;Cheng et al, 2009;Won et al, 2011;Bhadra et al, 2014;Peng et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Visual Detection of SARS-CoV-2 RNA by Conventional PCR-Induced Generation of DNAzyme Sensor

Anantharaj

Das

Sharanabasava

et al. 2020

Front. Mol. Biosci.

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The gold standard for the diagnosis of SARS-CoV-2, the causative agent of COVID-19, is real-time polymerase chain reaction (PCR), which is labor-intensive, expensive, and not widely available in resource-poor settings. Therefore, it is imperative to develop novel, accurate, affordable, and easily accessible assays/sensors to diagnose and isolate COVID-19 cases. To address this unmet need, we utilized the catalytic potential of peroxidase-like DNAzyme and developed a simple visual detection assay for SARS-CoV-2 RNA using a conventional thermal cycler by the PCR-induced generation of DNAzyme sensor. The performance of RT-PCR DNAzyme-based sensor was comparable to that of real-time PCR. The pilot scale validation of RT-PCR DNAzyme-based sensor has shown ~100% sensitivity and specificity in clinical specimens (nasopharyngeal swab, n = 34), with a good correlation (Spearman r = 0.799) with the Ct-value of fluorescence probe-based real-time PCR. These findings clearly indicate the potential of this inexpensive, sensitive, and specific molecular diagnostic test to extend our testing capabilities for the detection of SARS-CoV-2 to curtail COVID-19 transmission.

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Interaction of hemin with quadruplex DNA

Cited by 24 publications

References 27 publications

G-Quadruplexes as An Alternative Recognition Element in Disease-Related Target Sensing

G-Quadruplexes as An Alternative Recognition Element in Disease-Related Target Sensing

Study of bendamustine anticancer drug in gaseous and in a few selected liquid solvents phases using functional density theory (DFT)

Visual Detection of SARS-CoV-2 RNA by Conventional PCR-Induced Generation of DNAzyme Sensor

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