Spectroscopic approaches for studies of site-specific DNA base and backbone 'breathing' using exciton-coupled dimer-labeled DNA

Autor: Marcus, Andrew H., Matsika, Spiridoula, Heussman, Dylan, Sorour, Mohammed I., Maurer, Jack, Albrecht, Claire S., Enkhbaatar, Lulu, Herbert, Patrick, Kistler, Kurt A., von Hippel, Peter H.

DNA regulation and repair processes require direct interactions between proteins and DNA at specific sites. Local fluctuations of the sugar-phosphate backbones and bases of DNA (a form of DNA "breathing") play a central role in such processes. Here w

Externí odkaz: http://arxiv.org/abs/2403.16251

Using transition density models to interpret experimental optical spectra of exciton-coupled cyanine (iCy3)2 dimer probes of local DNA conformations at or near functional protein binding sites.

Autor: Heussman, Dylan, Enkhbaatar, Lulu, Sorour, Mohammed I, Kistler, Kurt A, von Hippel, Peter H, Matsika, Spiridoula, Marcus, Andrew H

Publikováno v: Nucleic Acids Research; 2/9/2024, Vol. 52 Issue 3, p1272-1289, 18p

Spectroscopic approaches for studies of site-specific DNA base and backbone 'breathing' using exciton-coupled dimer-labeled DNA.

Autor: Marcus AH; Center for Optical, Molecular and Quantum Science, Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403., Matsika S; Department of Chemistry, Temple University, Philadelphia, Pennsylvania 19122., Heussman D; Center for Optical, Molecular and Quantum Science, Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403., Sorour MI; Department of Chemistry, Temple University, Philadelphia, Pennsylvania 19122., Maurer J; Center for Optical, Molecular and Quantum Science, Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403., Albrecht CS; Center for Optical, Molecular and Quantum Science, Department of Physics, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Physics, and University of Oregon, Eugene, Oregon 97403., Enkhbaatar L; Center for Optical, Molecular and Quantum Science, Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403., Herbert P; Center for Optical, Molecular and Quantum Science, Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403.; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403., Kistler KA; Department of Chemistry, Brandywine Campus, The Pennsylvania State University, Media, Pennsylvania 19063., von Hippel PH; Institute of Molecular Biology, Department of Chemistry and Biochemistry, and University of Oregon, Eugene, Oregon 97403.

Publikováno v: ArXiv [ArXiv] 2024 Mar 27. Date of Electronic Publication: 2024 Mar 27.