Fluorescence quantum yields and their relation to lifetimes of rhodamine 6G and fluorescein in nine solvents: improved absolute standards for quantum yields

Absolute fluorescence quantum yields are reported for the rhodamine 6G cation and the fluorescein dianion dyes in nine solvents. This information is combined with previously reported fluorescence lifetimes to deduce radiative and nonradiative decay rates. Along the alcohol series from methanol to octanol, rhodamine 6G displays an increasing radiative rate, in parallel with the square of the refractive index increase, and a slightly decreasing nonradiative rate. Fluorescein is different: the apparent radiative rate actually decreases, suggesting that the emissive species is perturbed in some fashion. For both dyes, fluorescence yields are enhanced in D2O, rising to 0.98, in parallel with a corresponding increase in lifetimes. Protonated solvents invariably give shorter lifetimes and lower quantum yields, contrary to some previous speculation. From this work and an analysis of existing literature values, more precise values have been obtained for two previously proposed absolute quantum yield standards. The yield of fluorescein in 0.1 N NaOH(aq) is 0.925+/-0.015, and for rhodamine 6G in ethanol, it is 0.950+/-0.015. In both cases, the solutions are assumed to be in the limit of low concentration, excited close to their long-wave absorption band and at room temperature but may be either air-saturated or free of oxygen.     

Molecular conformations at the cellulose–water interface

¹³C-NMR chemical shifts were measured for C-4 and C-6 in a collection of eight crystalline glucoses and glucosides. The influence of the hydroxymethyl conformation was greater at C-4 than at C-6, with mean chemical shifts for gauche–trans molecules displaced 3.1 ppm (C-4) and 2.5 ppm (C-6) relative to gauche–gauche molecules. This information was used to interpret ¹³C-NMR spectra of crystalline celluloses. Chemical shifts for C-4 in the crystallite cores of celluloses I and II differed by just 0.2 ppm, but the corresponding chemical shifts for well-ordered crystallite surfaces differed by 3.0 ppm. The separation between crystallite-surface signals was attributed to different hydroxymethyl conformations at the cellulose–water interface, i.e., gauche–gauche and gauche–trans on crystallites of cellulose I and cellulose II, respectively. A broad C-4 signal in the spectrum of cellulose II indicated gauche–gauche conformations in disordered cellulose. Chemical shifts for C-6 were consistent with these conformations.     

Mediating Order and Modulating Porosity by Controlled Hydrolysis in a Phosphonate Monoester Metal–Organic Framework

A crystalline and permanently porous copper phosphonate monoester framework has been synthesized from a tetraaryl trigonal phosphonate monoester linker. This material has a surface area over 1000 m² g^?1, as measured by N₂ sorption, the highest reported for a phosphonate‐based metal–organic framework (MOF). The monoesters result in hydrophobic pore surfaces that give a low heat of adsorption for CO₂ and low calculated selectivity for CO₂ over N₂ and CH₄ in binary mixtures. By careful manipulation of synthetic conditions, it is possible to selectively remove some of the monoesters lining the pore to form a hydrogen phosphonate while giving an isomorphous structure. This increases the affinity of the framework for CO₂ giving higher ambient uptake, higher heat of adsorption, and much higher calculated selectivity for CO₂ over both N₂ and CH₄. Formation of the acid groups is noteworthy as complexation with the parent acid gives a different structure.     

Structural Characterization of N‐Alkylated Twisted Amides: Consequences for Amide Bond Resonance and N−C Cleavage

Herein, we describe the first structural characterization of N‐alkylated twisted amides prepared directly by N‐alkylation of the corresponding non‐planar lactams. This study provides the first experimental evidence that N‐alkylation results in a dramatic increase of non‐planarity around the amide N?C(O) bond. Moreover, we report a rare example of a molecular wire supported by the same amide C=O‐Ag bonds. Reactivity studies demonstrate rapid nucleophilic addition to the N?C(O) moiety of N‐alkylated amides, indicating the lack of n_N to π^*_C=O conjugation. Most crucially, we demonstrate that N‐alkylation activates the otherwise unreactive amide bond towards σ N?C cleavage by switchable coordination.     

Regioselective bromination of aromatic compounds with Br2/SO2Cl2 over microporous catalysts

A new selective brominating system Br₂/SO₂Cl₂/zeolite, has been discovered. Partially cation-exchanged Ca²⁺-Y zeolite efficiently catalyzes the selective para-bromination of neat chlorobenzene (CB) by Br₂/SO₂Cl₂ affording a CB conversion of ∼89% and a para-selectivity of ∼97%. During the bromination reaction, SO₂Cl₂ oxidizes HBr, prevents its accumulation within the zeolite pores and yields a more active brominating species. The Ca²⁺-Y catalyst was found to be stable under the bromination conditions, and can easily be regenerated by calcination. The Br₂/SO₂Cl₂/Ca²⁺-Y brominating system could be applicable to other activated aromatic compounds such as o-xylene, toluene and fluorobenzene.     

Empirical scoring functions: I. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes

This paper describes the development of a simple empirical scoringfunction designed to estimate the free energy of binding for aprotein–ligand complex when the 3D structure of the complex is knownor can be approximated. The function uses simple contact terms to estimatelipophilic and metal–ligand binding contributions, a simple explicitform for hydrogen bonds and a term which penalises flexibility. Thecoefficients of each term are obtained using a regression based on 82ligand–receptor complexes for which the binding affinity is known. Thefunction reproduces the binding affinity of the complexes with across-validated error of 8.68 kJ/mol. Tests on internal consistency indicatethat the coefficients obtained are stable to changes in the composition ofthe training set. The function is also tested on two test sets containing afurther 20 and 10 complexes, respectively. The deficiencies of this type offunction are discussed and it is compared to approaches by other workers.     

Inhibition of Ras Signaling by Blocking Ras–Effector Interactions with Cyclic Peptides

Ras genes are frequently activated in human cancers, but the mutant Ras proteins remain largely “undruggable” through the conventional small‐molecule approach owing to the absence of any obvious binding pockets on their surfaces. By screening a combinatorial peptide library, followed by structure–activity relationship (SAR) analysis, we discovered a family of cyclic peptides possessing both Ras‐binding and cell‐penetrating properties. These cell‐permeable cyclic peptides inhibit Ras signaling by binding to Ras‐GTP and blocking its interaction with downstream proteins and they induce apoptosis of cancer cells. Our results demonstrate the feasibility of developing cyclic peptides for the inhibition of intracellular protein–protein interactions and of direct Ras inhibitors as a novel class of anticancer agents.     

Determination of linkage position and anomeric configuration in Hex-Fuc disaccharides using electrospray ionization tandem mass spectrometry

Fixed-energy sequential tandem mass spectrometry (MS(n)) capabilities offered by quadrupole ion trap instruments have been explored in a systematic study of six isomers of Gal-Fucalpha-OBenzyl disaccharides. Under collision-induced dissociation (CID), sodiated molecular species generated in the positive-ion electrospray ionization mode yield simple and predictable mass spectra. Information on interglycosidic linkages and configurations can be deduced from the relative intensities of the selected diagnostic fragments arising from the glycosidic bond cleavages and corroborated by the fragments arising from cross-ring cleavages. As the CID patterns are not dependent on the number of prior tandem mass spectrometric steps, structures can be unambiguously assigned by matching the spectra with a library. The rules governing the fragmentation behavior of this class of oligosaccharides were tested for a representative isomeric disaccharide, Glcbeta1,3Fucalpha-OAllyl. The findings establish a basis for using MS(n) with a quadrupole ion trap instrument to elucidate structures of hexose-fucose subunits from more complicated oligosaccharides. Energy-resolved mass spectra were also acquired by CID tandem triple-quadrupole mass spectrometry. The breakdown behavior of the molecular ions revealed patterns which could differentiate stereoisomers of Gal-Fuc disaccharides over a range of collision energy from 20 to 50 eV.