Thermodynamics and site stoichiometry of DNA binding by a large antiviral hairpin polyamide

Song, Yang; Niederschulte, Jacquelyn; Bales, Kristin N.; Bashkin, James K.; Dupureur, Cynthia M.

doi:10.1016/j.biochi.2018.11.013

Cited by 8 publications

(3 citation statements)

References 65 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The majority of these compounds was synthesized as analogues of the natural DNA binding agent distamycin, which possesses a crescent shape that matches the curvature of DNA in the minor groove. The ability of these compounds to bind reversibly with the minor groove without causing permeant DNA damage, as encountered with the currently available toxic chemotherapeutics, offered them significant biological effects against multiple targets with good safety profile [ 8 ]; for instance, these compounds have shown therapeutic potential in the treatment of cancer [ 9 , 10 ], viral [ 11 , 12 ], bacterial [ 13 ], fungal [ 14 ], and parasitic diseases [ 15 , 16 , 17 ]. Hence, in this study, novel DNA minor groove binders were synthesized and tested for their antiamoebic properties via amoebicidal assays.…”

Section: Introductionmentioning

confidence: 99%

Synthesis and Evaluation of Novel DNA Minor Groove Binders as Antiamoebic Agents

et al. 2022

View full text Add to dashboard Cite

The free-living amoeba Acanthamoeba castellanii is responsible for the central nervous infection granulomatous amoebic encephalitis and sight-threatening infection Acanthamoeba keratitis. Moreover, no effective treatment is currently present, and a combination drug therapy is used. In this study, twelve DNA minor groove binders (MGBs) were synthesized and tested for their antiamoebic activity via amoebicidal, encystation, excystation, and cytopathogenicity assays. It was found that the compounds MGB3, MGB6, MGB22, MGB24, and MGB16 significantly reduce amoeba viability to 76.20%, 59.45%, 66.5%, 39.32%, and 43.21%, respectively, in amoebicidal assays. Moreover, the compounds MGB6, MGB20, MGB22, MGB28, MGB30, MGB32, and MGB16 significantly inhibit Acanthamoeba cysts, leading to the development of only 46.3%, 39%, 30.3%, 29.6%, 27.8%, 41.5%, and 45.6% cysts. Additionally, the compounds MGB3, MGB4, MGB6, MGB22, MGB24, MGB28, MGB32, and MGB16 significantly reduce the re-emergence of cysts to trophozoites, with viable trophozoites being only 64.3%, 47.3%, 41.4%, 52.9%, 55.4%, 40.6%, 62.1%, and 51.7%. Moreover, the compounds MGB3, MGB4, and MGB6 exhibited the greatest reduction in amoeba-mediated host-cell death, with cell death reduced to 41.5%, 49.4%, and 49.5%. With the following determined, future in vivo studies can be carried out to understand the effect of the compounds on animal models such as mice.

show abstract

Section: Introductionmentioning

confidence: 99%

Synthesis and Evaluation of Novel DNA Minor Groove Binders as Antiamoebic Agents

et al. 2022

View full text Add to dashboard Cite

show abstract

“…[27][28][29] Pattern recognition applies mathematical and statistical methods to infer the essential attributes of sample categories via data analysis, and then forecasts and classifies the samples. [30][31][32] Through the classification of data processing, pattern recognition determines the category of samples and identifies the differential compounds. [33][34][35] Researchers can quickly, accurately, and maximally obtain all kinds of sample information via pattern recognition, which has been widely used in chemical related disciplines such as drug classification, [36][37][38] drug design, [39,40] quality control [41] and production management.…”

Section: Introductionmentioning

confidence: 99%

“…Pattern recognition applies mathematical and statistical methods to infer the essential attributes of sample categories via data analysis, and then forecasts and classifies the samples [30–32] . Through the classification of data processing, pattern recognition determines the category of samples and identifies the differential compounds [33–35] .…”

Section: Introductionmentioning

confidence: 99%

Rapid Identification of Polypeptide from Carbapenem‐Resistant and SusceptibleEscherichia colivia Orbitrap‐MS and Pattern Recognition Analyses

Sun

Wang

et al. 2022

Chemistry & Biodiversity

View full text Add to dashboard Cite

A rapid and accurate analytical method was established to identify CREC and CSEC. Orbitrap-MS was used to detect the polypeptide of CREC and CSEC strains, and MS data were analyzed by pattern recognition analyses such as hierarchical cluster analysis (HCA), principal component analysis (PCA), partial least squares discriminant analysis (PLS-DA), and orthogonal partial least squares discriminant analysis (OPLS-DA). HCA based on the farthest distance method could well distinguish the two types of E. coli, and the cophenetic correlation coefficient of the farthest distance method was 0.901. Comparing the results of PCA, PLS-DA, and OPLS-DA, OPLS-DA exhibited the highest accuracy in predicting the CREC and CSEC strains. A total of 26 compounds were identified, and six of the compounds were the highly significant difference between the two types of strains. MS combined with pattern recognition can achieve a more comprehensive and efficient statistical analysis of complex biological samples.

show abstract

DNA binding thermodynamics and site stoichiometry as a function of polyamide size

et al. 2019

View full text Add to dashboard Cite

Thermodynamics and site stoichiometry of DNA binding by a large antiviral hairpin polyamide

Cited by 8 publications

References 65 publications

Synthesis and Evaluation of Novel DNA Minor Groove Binders as Antiamoebic Agents

Synthesis and Evaluation of Novel DNA Minor Groove Binders as Antiamoebic Agents

Rapid Identification of Polypeptide from Carbapenem‐Resistant and SusceptibleEscherichia colivia Orbitrap‐MS and Pattern Recognition Analyses

DNA binding thermodynamics and site stoichiometry as a function of polyamide size

Contact Info

Product

Resources

About