Dynamics of the electron transfer reaction between an oxazine dye and DNA oligonucleotides monitored on the single-molecule level

Sauer, Markus; Drexhage, K. H.; Lieberwirth, Ulrike; Müller, Rolf‐Joachim; Nord, S.; Zander, C.

doi:10.1016/s0009-2614(97)01377-8

Cited by 75 publications

(69 citation statements)

References 33 publications

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“…Guanine is known to quench a number of fluorophores, including our dye molecules from the excited state through electron transfer. 29,[41][42][43] It is also possible that the dyes can form ground-state isomers with nearby residues as well as the rRNA bases. Therefore, the presence of nearby guanine bases as well as other chemical groups are likely to participate in both static and dynamic quenching, especially since the dye molecules are conjugated with six-carbon linkers and could have partial line is drawn at the 97% confidence interval of the chisquared surface (2s confidence).…”

Section: Quantifying Static and Dynamic Quenching Of Conjugated Fluormentioning

confidence: 99%

Measurements of Internal Distance Changes of the 30S Ribosome Using FRET with Multiple Donor–Acceptor Pairs: Quantitative Spectroscopic Methods

Majumdar¹,

Hickerson²,

Noller³

et al. 2005

Journal of Molecular Biology

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Section: Quantifying Static and Dynamic Quenching Of Conjugated Fluormentioning

confidence: 99%

Measurements of Internal Distance Changes of the 30S Ribosome Using FRET with Multiple Donor–Acceptor Pairs: Quantitative Spectroscopic Methods

Majumdar¹,

Hickerson²,

Noller³

et al. 2005

Journal of Molecular Biology

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“…The lifetime of the probe TNS in an aprotic, nonpolar solvent was reported to be 7.3 ns with a maximum emission at 420 nm and a quantum yield of 0.3. 30 We also found that a cationic dye (Oxazine 1; OX1), which is commonly used to investigate the electron-transfer dynamics in DNA, 31 can also be incorporated in the nanoaggregate. The chemical structure of OX1 is shown in the inset of Figure 7a.…”

Section: Resultsmentioning

confidence: 93%

Aggregated CdS Quantum Dots: Host of Biomolecular Ligands

Narayanan

Pal

2006

J. Phys. Chem. B

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In this contribution, we have studied structural and photophysical properties of aggregated CdS quantum dots (QDs) capped with 2-mercaptoethanol in aqueous medium. The hydrodynamic diameter of the nanostructures in aqueous solution was found to be ∼160 nm with the dynamic light scattering (DLS) technique, which is in close agreement with atomic force microscopy (AFM) studies (diameter ∼150 nm). However, the UVvis absorption spectroscopy, powder X-ray diffraction (XRD), and transmission electron microscopy (TEM) studies confirm the average particle size (QD) in the nanoaggregate to be 4.0 ( 0.5 nm. The steady-state and time-resolved photoluminescence studies on the QDs further confirm preservation of electronic band structure of the QDs in the nanoaggregate. To study the nature of the nanoaggregate we have used small fluorescent probes, which are widely used as biomolecular ligands (2,6-p-toluidinonaphthalene sulfonate (TNS) and Oxazine 1), and found the pores of the aggregate to be hydrophobic in nature. The significantly large spectral overlap of the host quantum dots (donor) with that of the guest fluorescent probe Oxazine 1 (acceptor) allows us to carry out Förster resonance energy transfer (FRET) studies to estimate average donor-acceptor distance in the nanostructure, found to be ∼25 Å. The quantum dot aggregate and the characterization techniques reported here could have implications in the future application of the QD-nanoaggregate as host of small ligand molecules of biological interest.

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“…Blinking-intensity fluctuations in different time ranges-is an intrinsic property of the fluorophore. It is suggested to be a result of transient transitions into triplet states (20), formation of conformational isomers (21), or interaction with radicals (22,23). To establish the amount of blinking of the fluorophore, we used the L90C control mutant.…”

Section: Resultsmentioning

confidence: 99%

Fluorescence detection of the movement of single KcsA subunits reveals cooperativity

Blunck

McGuire

Hyde

et al. 2008

Proc. Natl. Acad. Sci. U.S.A.

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The prokaryotic KcsA channel is gated at the helical bundle crossing by intracellular protons and inactivates at the extracellular selectivity filter. The C-terminal transmembrane helix has to undergo a conformational change for potassium ions to access the central cavity. Whereas a partial opening of the tetrameric channel is suggested to be responsible for subconductance levels of ion channels, including KcsA, a cooperative opening of the 4 subunits is postulated as the final opening step. In this study, we used single-channel fluorescence spectroscopy of KcsA to directly observe the movement of each subunit and the temporal correlation between subunits. Purified KcsA channels labeled at the C terminus near the bundle crossing have been inserted into supported lipid bilayer, and the fluorescence traces analyzed by means of a cooperative or independent Markov model. The analysis revealed that the 4 subunits do not move fully independently but instead showed a certain degree of cooperativity. However, the 4 subunits do not simply open in 1 concerted step.gating ͉ ion channel ͉ single-molecule

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Dynamics of the electron transfer reaction between an oxazine dye and DNA oligonucleotides monitored on the single-molecule level

Cited by 75 publications

References 33 publications

Measurements of Internal Distance Changes of the 30S Ribosome Using FRET with Multiple Donor–Acceptor Pairs: Quantitative Spectroscopic Methods

Measurements of Internal Distance Changes of the 30S Ribosome Using FRET with Multiple Donor–Acceptor Pairs: Quantitative Spectroscopic Methods

Aggregated CdS Quantum Dots: Host of Biomolecular Ligands

Fluorescence detection of the movement of single KcsA subunits reveals cooperativity

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