Optical Properties of N-Succinimidyl Bithiophene and the Effects of the Binding to Biomolecules: Comparison between Coupled-Cluster and Time-Dependent Density Functional Theory Calculations and Experiments

2,2'-Bithiophene as sensor tag for ligand-protein binding assays based on Förster resonance energy transfer

Ligand-protein binding assays based on intrinsic protein fluorescence are straightforward, inexpensive methods to study ligand-protein interactions. However, their applicability is limited to ligands that can interfere with protein emission. In this Note, we describe the applicability of 2,2'-bithiophene as a FRET-based sensor tag, that can be incorporated into high-affinity ligands to generate target-specific compounds able to quench protein fluorescence upon binding. The generated ligands were assessed in different assay designs. Considerations to account for possible sources of interference with the assay readout are addressed, besides interpretation of the obtained results.

Dye chemistry with time-dependent density functional theory

In this perspective, we present an overview of the determination of excited-state properties of "real-life" dyes, and notably of their optical absorption and emission spectra, performed during the last decade with time-dependent density functional theory (TD-DFT). We discuss the results obtained with both vertical and adiabatic (vibronic) approximations, choosing relevant examples for several series of dyes. These examples include reproducing absorption wavelengths of numerous families of coloured molecules, understanding the specific band shape of amino-anthraquinones, optimising the properties of dyes used in solar cells, mimicking the fluorescence wavelengths of fluorescent brighteners and BODIPY dyes, studying optically active biomolecules and photo-induced proton transfer, as well as improving the properties of photochromes.

Benchmarking the performance of spin-component scaled CC2 in ground and electronically excited states

A generalization of the spin-component scaling and scaled opposite-spin modifications of second-order Møller-Plesset perturbation theory to the approximate coupled-cluster singles-and-doubles model CC2 (termed SCS-CC2 and SOS-CC2) is discussed and a preliminary implementation of ground and excited state energies and analytic gradients is reported. The computational results for bond distances, harmonic frequencies, adiabatic and 0-0 excitation energies are compared with experimental results to benchmark their performance. It is found that both variants of the spin-scaling increase the robustness of CC2 against strong correlation effects and lead for this method even to somewhat larger improvements than those observed for second-order Møller-Plesset perturbation theory. The spin-component scaling also enhances systematically the accuracy of CC2 for 0-0 excitation energies for pi --> pi* and n --> pi* transitions, if geometries are determined at the same level.

Optical Properties of the Phosphorescent Trinuclear Copper(I) Complexes of Pyrazolates: Insights from Theory

Theoretical investigations have been performed to explore the optical properties of {[3,5-(CF3)(2)Pz]Cu}3 in monomeric and dimeric forms using TD-DFT approaches. The emission of all complexes originates from the lowest triplet excited-states (T1), and the corresponding emissive states are assigned as the mixture of the metal-centered charge transfer and ligand-to-metal charge transfer. The features of the emission spectrum are clarified in detail. The bulk emission spectrum of complex is mainly determined by the stacked dimers rather than the individual monomers. The predicted maximum emission wavelength (lambda(em)) are in good agreement with experimental values, indicating that the phosphorescence bands can be assigned to two different conformations for the neighboring stacked dimers sharing the same monomer in the complex. Energy transfer from T1 of one stacked dimer to the neighboring one is responsible for the disappearance of the shoulder, leaving only the main peak upon heating. With the aim to reveal the conformational dependence for the triplet excited-state emission spectrum, the optical properties of various stacked dimers with different conformations are investigated by varying the relative arrangements through changing inter-monomer distance or rotational angles for the dimer which is responsible for the main peak emission. Calculation results suggest that the shortest intermolecular Cu...Cu distance plays an important role in the emission spectra of the vertical- and tilting-movement dimers, which is ascribed to the variation of the energy gap for the frontier molecular orbitals involved in the main emitting transition. The blue shift of lambda(em) in parallel-movement and rotational dimers can be traced back to the variation of the mutual spatial orientation. Therefore, the modulation of the extent of movement or rotational angles for stacked dimers by external perturbations creates new possibilities for the design of molecular light-emitting devices.

Testing Oligothiophene Fluorophores under Physiological Conditions. Preparation and Optical Characterization of the Conjugates of Bovine Serum Albumin with Oligothiophene N-Hydroxysuccinimidyl Esters

Bovine serum albumin (BSA) was reacted with linear and newly synthesized branched oligothiophene N-hydroxysuccinimidyl ester fluorophores (TSEs) in moderately basic carbonate buffer solution. Optically stable BSA-TSE conjugates were obtained with a degree of labeling depending on experimental conditions. Conjugates with high fluorophore to BSA ratios (F/BSA = 8) displayed fluorescence quantum yields in the range of 10-30% in water at pH = 7.2, comparable to the quantum yield (25%) of the BSA-FITC conjugate prepared under the same conditions and with the same degree of labeling.