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The CH/π hydrogen bond is an attractive molecular force occurring between a soft acid and a soft base. Contribution from the dispersion energy is important in typical cases where aliphatic or aromatic CH groups are involved. Coulombic energy is of minor importance as compared to the other weak hydrogen bonds. The hydrogen bond nature of this force, however, has been confirmed by AIM analyses. The dual characteristic of the CH/π hydrogen bond is the basis for ubiquitous existence of this force in various fields of chemistry. A salient feature is that the CH/π hydrogen bond works cooperatively. Another significant point is that it works in nonpolar as well as polar, protic solvents such as water. The interaction energy depends on the nature of the molecular fragments, CH as well as π-groups: the stronger the proton donating ability of the CH group, the larger the stabilizing effect. This Perspective focuses on the consequence of this molecular force in the conformation of organic compounds and supramolecular chemistry. Implication of the CH/π hydrogen bond extends to the specificity of molecular recognition or selectivity in organic reactions, polymer science, surface phenomena and interactions involving proteins. Many problems, unsettled to date, will become clearer in the light of the CH/π paradigm.

The CH/π hydrogen bond in chemistry. Conformation, supramolecules, optical resolution and interactions involving carbohydrates

Forster resonance energy transfer (FRET) occurs when the distance between a donor fluorophore and an acceptor is within 10 nm, and its application often necessitates fluorescent labeling of biological targets. However, covalent modification of biomolecules can inadvertently give rise to conformational and/or functional changes. This review describes the application of intrinsic protein fluorescence, predominantly derived from tryptophan (λ EX ≈ 280 nm, λ EM ≈ 350 nm), in protein-related research and mainly focuses on label-free FRET techniques. In terms of wavelength and intensity, tryptophan fluorescence is strongly influenced by its (or the proteinlocal environment, which, in addition to fluorescence quenching, has been applied to study protein conformational changes. Intrinsic Forster resonance energy transfer (iFRET), a recently developed technique, utilizes the intrinsic fluorescence of tryptophan in conjunction with target-specific fluorescent probes as FRET donors and acceptors, respectively, for real time detection of native proteins.

Intrinsic tryptophan fluorescence in the detection and analysis of proteins: a focus on Förster resonance energy transfer techniques.

1.1. Historical Background Hydrogen bonds1,2 are one of the principal intermolecular forces. A special class are ionic hydrogen bonds (IHBs) that form between ions and molecules with bonds strengths of 5-35 kcal/mol, up to a third of the strength of covalent bonds. These strong interactions are critical, for example, in ionic clusters and nucleation, in electrolytes, ion solvation, and acid-base chemistry, in the structures of ionic crystals, surfaces, silicates, and clays, in surface adsorption, and in self-assembly in supramolecular chemistry and molecular crystals.3 IHBs are also important in bioenergetics including protein folding, enzyme active centers, formation of membranes and proton transport, and biomolecular recognition. With such wide-ranging roles, the fundamental properties of IHB interactions need to be understood. The energetics of IHB interactions cannot be isolated and quantified in the condensed phase. However, these interactions can be isolated and studied quantitatively in gas phase. These studies lead to a fundamental understanding of relations between IHB bond strengths and molecular structure, the solvation of ions, especially in the critical inner shells, and acid-based phenomena and bioenergetics. This review will present the basic insights that have been obtained in the past four decades. It will present a comprehensive review of the thermochemistry and its structural implications obtained from ab initio calculations. Relevant recent results from spectroscopy will be also illustrated. The advent of variable temperature high-pressure mass spectrometry (HPMS) introduced by Field and co-workers in the 1960s4 and pulsed high-pressure mass spectrometry (PHPMS) introduced by Kebarle in the late 1960s5 have been particularly significant. These workers realized that at pressures of several torrs and gas densities of 1016-1017 cm-3 in ion sources, ions can undergo 103-106 collisions with neutral molecules during typical residence times of 0.1-10 ms and establish thermal ion populations and * E-mail: m.mautner@solis1.com. 213 Chem. Rev. 2005, 105, 213−284

http://www.astro-ecology.com/PDFTheIonicHydrogenBondChemicalReviews2005Paper.pdf

The Ionic Hydrogen Bond

Organic chemists tend to consider the conformation of compounds as a consequence of repulsive steric interactions. In other words, “the steric effect” means “repulsive” in many cases. Thus, folded conformations observed in organic molecules have been often regarded as unusual, while the reason remained undecided. However, accurate determinations by modern spectroscopic methods, recent crystallographic data, and high-level ab initio MO calculations have demonstrated that the folded conformation is by no means exceptional. We will show that the gauche or folded conformation prevails in organic compounds bearing at least an electronegative or π-group in the molecule. We consider that the above phenomenon finds its origin, in most cases, in nonconventional hydrogen bonds such as the CH/X (X ) O, halogen, etc.) and the XH/π (X ) O, N, C, etc.) hydrogen bonds. * To whom correspondence should be addressed. E-mail: shu@ hiroshima-u.ac.jp. ‡ Hiroshima University. § Yokohama National University. ⊥ The CHPI Institute. Chem. Rev. 2010, 110, 6049–6076 6049

Relevance of Weak Hydrogen Bonds in the Conformation of Organic Compounds and Bioconjugates: Evidence from Recent Experimental Data and High-Level ab Initio MO Calculations

The hydration shell of Na+ ion in the gas phase (∼4) is smaller than that in solution (6). The energetics of various solvated Na+ clusters indicate that lowering the pairwise interaction between the ligand and the ion can increase the coordination number in the gas phase. We report here the first hexa-coordinated Na+ cluster ion in the gas phase, which can be formed by substituting H2O with 1,4-difluorobenzene. Infrared-photodissociation spectroscopy of the O–H stretch was used to infer the structure.

Mimicking the solvation of aqueous Na+ in the gas phase

A supramolecular fluorophore, 1,3,5-tris(4′-aminophenyl)benzene (TAPB), selectively senses polynitroaromatic compounds (PNAC), viz. 2,4,6-trinitrotoluene (TNT), 2,4-dinitrotoluene (DNT), picric acid (PA), m-dinitrobenzene (m-DNB) and p-dinitrobenzene (p-DNB) through donor–acceptor complexation. Steady-state and time resolved fluorescence measurements indicate predominantly static quenching of the TAPB fluorophore with TNT, DNT, m-DNB and p-DNB. In the case of PA, a new emissive band with a marginally longer lifetime emerges due to complex formation with TAPB. The selectivity of sensing action is rationalized through computation of HOMO and LUMO energies for both the fluorophore and the analytes using the M06-2X/6-311+G(d,p) level of theory. Practical utility of the fluorophore has also been demonstrated with TNT and DNT vapour.

Selective fluorescence sensing of polynitroaromatic explosives using triaminophenylbenzene scaffolds

A fluorescent chemo-sensor, 1,3,5-tris(4′-(N,N-dimethylamino)phenyl)benzene was synthesized by substituting the N–H protons of 1,3,5-tris(4′-aminophenyl)benzene with methyl groups. The chemo-sensor shows highly selective and remarkable fluorescence quenching in the presence of picric acid with a detection limit of 1.5 ppm. The origin of the selectivity was investigated using absorption, fluorescence emission and 1H NMR spectroscopic techniques. The solid state structure of 1,3,5-tris(4′-(N,N-dimethylamino)phenyl)benzene and its picric acid complex reveals multiple hydrogen bonds (N–H⋯O and C–H⋯O), π–π interactions and electrostatic interactions between 1,3,5-tris(4′-(N,N-dimethylamino)phenyl)benzene and picric acid. The proton transfer process from picric acid to 1,3,5-tris(4′-(N,N-dimethylamino)phenyl)benzene results in the formation of picrate anions and the triply protonated 1,3,5-tris(4′-(N,N-dimethylamino)phenyl)benzene species containing dimethylammonium (–NHMe2+) groups.

G. Naresh Patwari

Papers

Mimicking the solvation of aqueous Na+ in the gas phase

Selective fluorescence sensing of polynitroaromatic explosives using triaminophenylbenzene scaffolds

Charge transfer aided selective sensing and capture of picric acid by triphenylbenzenes

Vibrational spectroscopic evidence of unconventional hydrogen bonds

The C–H⋯H–B dihydrogen bonded borane-trimethylamine dimer: A computational study