Surface-Plasmon-Polaritons for Reversible Assembly of Gold Nanoparticles, In Situ Nanogap Tuning, and SERS.

A transportable reversible assembly of gold nanoparticles (AuNPs) in an aqueous environment addresses the need for in situ surafce-enhanced Raman spectroscopy (SERS) hotspot creation for biological applications. Usually, light-directed AuNP assembly methods use higher laser powers and surfactants and are, hence, unsuitable for biological applications. Here, surface plasmon polaritons-assisted dynamic assembly of AuNPs are demonstrated at laser power density as low as 100 nW µm-2 . The AuNP assembly with multiple controllable hotspots is generated in an Au-water interface for solution-based SERS measurements. The major advantage of the method is that the interparticle nanogap is tunable to achieve analyte and AuNP-specific optimum SERS enhancement. The SERS intensity is reproducible on multiple reassembly cycles and assembly attempts, proving repeatability in the produced nanogap pattern. The assembly experiments reveal the influence of AuNP surface charge and the resulting polarizability on the SPP forces. The developed system and method can detect sulforhodamine 101 (SR101) dye molecules at concentrations as low as 10-10  m. Further, the SERS measurements on double-stranded DNA suggest that the molecules are oriented in a fashion to expose adenosine to the enhanced field, leading to its dominance in the recorded spectra.

New benzisoxazole derivative: A potential corrosion inhibitor for mild steel in 0.5 M hydrochloric acid medium -insights from electrochemical and density functional theory studies.

6-fluoro-3-(4-piperidinyl)-1,2-benzisoxazole. HCl (FPBH), a substituted benzisoxazole derivative, was prepared from isonipecotic acid and characterized using various spectroscopic techniques. Using electrochemical examinations such as potentiodynamic polarisation (PDP) and electrochemical impedance spectroscopic (EIS) technique, the corrosion mitigation capabilities of this compound for mild steel (MS) in 0.5 M HCl medium were investigated. Theoretical studies were performed using quantum chemical calculations and density functional theory (DFT). PDP results exhibited the mixed-type behavior of FPBH and showed a maximum efficiency of 94.5 % at 1 × 10-3 M. The development of a protective adsorbed layer of FPBH decreases the corrosion current density (icorr) and corrosion rate (CR). The EIS technique revealed that the rise in the charge transfer resistance (Rct) values and reduction in the thickness of the double-layer capacitance (Cdl) reflected the drop in corrosion rate. The adsorption of FPBH took place through physisorption by conforming Langmuir's isotherm. The DFT method was performed on the optimized structure of FPBH to get additional evidence on the action mode of FPBH with the metal surface.

Effect of OH substitution in 3-benzylchroman-4-ones: crystallographic, CSD, DFT, FTIR, Hirshfeld surface, and energy framework analysis.

3-Benzylchroman-4-ones (homoisoflavanones) are oxygen-containing heterocycles with a sixteen-carbon skeleton. They belong to the class of naturally occurring polyphenolic flavonoids with limited occurrence in nature and possess anti-inflammatory, antibacterial, antihistaminic, antimutagenic, antiviral, and angioprotective properties. Recently, we reported the synthesis and anticancer activity studies of fifteen 3-benzylchroman-4-one molecules, and most of them were proven to be effective against BT549 and HeLa cells. In this work, we report the single-crystal X-ray crystallographic studies of two molecules 3-[(2-hydroxyphenyl)methyl]-3,4-dihydro-2H-1-benzopyran-4-one and 3-[(2,4-dimethoxyphenyl)methyl]-3,4-dihydro-2H-1-benzopyran-4-one. The single crystals were grown using a novel laser-induced crystallization technique. We observed that the 3-benzylchroman-4-one derivative bearing OH substitution at the 2' position adopted different conformation due to formation of dimers through O-H⋯O, and C-H⋯O intermolecular hydrogen bondings. The role of OH substitution in the aforementioned conformational changes was evaluated using density functional theory (DFT), Hirshfeld surface, energy framework and FTIR spectroscopy analysis. In addition, we have carried out a Cambridge Structural Database (CSD) study to understand the conformational changes using five analogue structures. X-ray crystallographic, computational, and spectroscopic studies of 3-benzylchroman-4-ones provided an insight into the role of substitution at benzyl moieties in stabilizing the three-dimensional (3D) structures.

Refractive index and formaldehyde sensing with silver nanocubes.

We report the synthesis of Ag nanocubes by using a sodium sulfide assisted solvothermal method. Small edge-length nanocubes (32 and 44 nm) were obtained at 145 and 155 °C reaction temperature in the synthesis process. The refractive index sensitivity of synthesized nanocubes was investigated with an aqueous solution of glucose. The refractive index sensitivity of 161 nm per RIU was found in the colloidal dispersion of nanocubes. On the LSPR chip made by immobilization of nanocubes on the (3-aminopropyl)trimethoxysilane modified glass coverslip, the obtained sensitivity was 116 nm per RIU. Detection of formaldehyde in water and milk samples was also performed with nanocubes of edge-length of 44 nm. Formaldehyde detection was performed by utilizing the interaction of the aryl amine of 4-aminothiophenol immobilized on the nanocubes and electrophilic carbon atom of the formaldehyde. In water and in diluted milk, the formaldehyde sensitivity of 0.62 and 0.29 nm µM-1 was obtained, respectively.

A highly sensitive surface-enhanced Raman scattering substrate prepared on a hydrophobic surface using controlled evaporation.

In the present work, we report the fabrication of a surface-enhanced Raman spectroscopy (SERS) substrate on a simple and easily fabricable hydrophobic surface. The substrates are prepared by slow and fast evaporation of a droplet of silver nanoparticle suspension in water. The corresponding identifiers for two substrates are "s_evp" and "f_evp" respectively. It is found that the dried spot size is small on s_evp compared to that on f_evp. This also minimizes the coffee stain effect and enriches the spot in a better way on s_evp compared to f_evp. Consequently, using SERS experimentation on our lab-built setup, concentration as low as 2.5*10-12 M of rhodamine 6G molecules was detected on s_evp compared to 2.5 × 10-10 M on f_evp. The proposed s_evp SERS substrate is much easier to fabricate and easy to use compared to super-hydrophobic SERS substrates.

Binding Motifs in the Naked Complexes of Target Amino Acids with an Excerpt of Antitumor Active Biomolecule: An Ion Vibrational Spectroscopy Assay.

The structures of proton-bound complexes of 5,7-dimethoxy-4H-chromen-4-one (1) and basic amino acids (AAs), namely, histidine (His) and lysine (Lys), have been examined by means of mass spectrometry coupled with IR ion spectroscopy and quantum chemical calculations. This selection of systems is based on the fact that 1 represents a portion of glabrescione B, a natural small molecule of promising antitumor activity, while His and Lys are protein residues lining the cavity of the alleged receptor binding site. These species are thus a model of the bioactive adduct, although clearly the isolated state of the present study bears little resemblance to the complex biological environment. A common feature of [1+AA+H]+ complexes is the presence of a protonated AA bound to neutral 1, in spite of the fact that the gas-phase basicity of 1 is comparable to those of Lys and His. The carbonyl group of 1 acts as a powerful hydrogen-bond acceptor. Within [1+AA+H]+ the side-chain substituents (imidazole group for His and terminal amino group for Lys) present comparable basic properties to those of the α-amino group, taking part to a cooperative hydrogen-bond network. Structural assignment, relying on the comparative analysis of the infrared multiple photon dissociation (IRMPD) spectrum and calculated IR spectra for the candidate geometries, derives from an examination over two frequency ranges: 900-1800 and 2900-3700 cm-1 . Information gained from the latter one proved especially valuable, for example, pointing to the contribution of species characterized by an unperturbed carboxylic OH or imidazole NH stretching mode.

Vibronic spectra of jet-cooled 1-methyl-2(1H)-quinolinone studied by Fluorescence spectroscopy and Quantum chemical calculation.

1-methyl-2(1H)-quinolinone (MeQone) forms the framework of several hundred quinolone alkaloid molecules, both natural and synthetic, which are being used in various biological applications. In this work, we present experimental and theoretical spectroscopic investigation on the MeQone in its ground and first electronic excited states. The vibronically resolved fluorescence excitation (FE) spectrum of MeQone is recorded within 700 cm-1 to the electronic origin under the supersonic jet-cooled condition. The dispersed fluorescence (DF) spectra for bands observed in the FE spectrum were also recorded. Bands observed in DF spectra were identified and assigned with the help of Density Functional Theory (DFT) calculated harmonic vibrational frequencies. Based on the assignments of bands in the ground electronic state and TD-DFT calculated frequencies for the first excited state, we have identified and successfully assigned the bands observed in FE spectrum. This study could be helpful to understand the photophysical properties of MeQone derivatives, the quinolone alkaloids.

Ab initio and NBO studies of methyl internal rotation in 1-methyl-2(1H)-quinolinone: effect of aromatic substitution to 1-methyl-2(1H)-pyridone.

1-methyl-2(1H)-quinolinone (MeQone) forms the framework of several hundred alkaloid molecules both natural and synthetic being used for various biological applications. From chemical structure point of view, the molecules can also be seen as an aromatic ring fused to 1-methyl-2(1H)-pyridone (1-MPY). In this work, we present theoretical investigations on internal rotation of methyl group in MeQone in light of 1-MPY. We looked into the change in the three-fold (V3) methyl internal rotation barrier resulted from the aromatic ring substitution to 1-MPY. The V3 term in two molecules were calculated using density functional theory and Hartree-Fock theory with different basis sets. MeQone has calculated V3 term (in S0 state) three times higher in magnitude compared with that of 1-MPY. The role of aromatic substitution in increase of V3 term is investigated using natural bond orbital (NBO) analyses. In the NBO analysis, it is found that the aromatic ring as highly delocalized π-system lowers the magnitude of hyperconjugation energy in MeQone compared with 1-MPY. This is due to the extension of delocalization of π-electrons to pyridone ring which lowers the orbital overlap. However, the Lewis energy increases substantially and make the overall barrier energy higher in MeQone compared with 1-MPY. From our study, we conclude that in the molecules such as 1-MPY and MeQone where the methyl group has two single bonds vicinal to it, the overall hyperconjugation energy is always barrier forming with nonlocal interactions playing significant role. Also, the Lewis energy plays the decisive role in barrier formation, and its magnitude can be tuned by tuning the π-electron delocalization. We have also looked into the change in methyl group conformation upon electronic excitation to S1 state. In 1-MPY, the methyl group rotated by 60° upon excitation whereas in MeQone, there was no conformational change. Strong π*-σ* interaction in LUMO in top-of-barrier conformation is responsible for the change in the methyl group conformation in 1-MPY, whereas same π*-σ* interaction in LUMO of minimum energy conformation results in unchanged excited state conformation in MeQone. Graphical abstract.

Intermolecular dissociation energies of 1-naphthol complexes with large dispersion-energy donors: Decalins and adamantane.

The ground-state intermolecular dissociation energies D0(S0) of supersonic-jet cooled intermolecular complexes of 1-naphthol (1NpOH) with the bi- and tricycloalkanes trans-decalin, cis-decalin, and adamantane were measured using the stimulated-emission-pumping/resonant two-photon ionization (SEP-R2PI) method. Using UV/UV holeburning, we identified two isomers (A and B) of the adamantane and trans-decalin complexes and four isomers (A-D) of the cis-decalin complex. For 1NpOH·adamantane A and B, the D0(S0) values are 21.6 ± 0.15 kJ/mol and 21.2 ± 0.32 kJ/mol, those of 1NpOH·trans-decalin A and B are 28.7 ± 0.3 kJ/mol and 28.1 ± 0.9 kJ/mol, and those of 1NpOH·cis-decalin A and B are 28.9 ± 0.15 kJ/mol and 28.7 ± 0.3 kJ/mol. Upon S0 → S1 electronic excitation of the 1NpOH moiety, the dissociation energies of adamantane, trans-decalin, and the cis-decalin isomer C change by <1% and those of cis-decalin isomers A, B, and D increase only slightly (1%-3%). This implies that the hydrocarbons are dispersively adsorbed to a naphthalene "face." Calculations using the dispersion-corrected density functional theory methods B97-D3 and B3LYP-D3 indeed predict that the stable structures have face geometries. The B97-D3 calculated D0(S0) values are within 1 kJ/mol of the experiment, while B3LYP-D3 predicts D0 values that are 1.4-3.3 kJ/mol larger. Although adamantane has been recommended as a "dispersion-energy donor," the binding energies of the trans- and cis-decalin adducts to 1NpOH are 30% larger than that of adamantane. In fact, the D0 value of 1NpOH·adamantane is close to that of 1NpOH·cyclohexane, reflecting the nearly identical contact layer between the two molecules.

Benchmark Experimental Gas-Phase Intermolecular Dissociation Energies by the SEP-R2PI Method.

The gas-phase ground-state dissociation energy D0(S0) of an isolated and cold bimolecular complex is a fundamental measure of the intermolecular interaction strength between its constituents. Accurate D0 values are important for the understanding of intermolecular bonding, for benchmarking high-level theoretical calculations, and for the parameterization of dispersion-corrected density functionals or force-field models that are used in fields ranging from crystallography to biochemistry. We review experimental measurements of the gas-phase D0(S0) and D0(S1) values of 55 different M⋅S complexes, where M is a (hetero)aromatic molecule and S is a closed-shell solvent atom or molecule. The experiments employ the triply resonant SEP-R2PI laser method, which involves M-centered (S0 → S1) electronic excitation, followed by S1 → S0 stimulated emission spanning a range of S0 state vibrational levels. At sufficiently high vibrational energy, vibrational predissociation of the M⋅S complex occurs. A total of 49 dissociation energies were bracketed to within ≤1.0 kJ/mol, providing a large experimental database of accurate noncovalent interactions.

Face, Notch, or Edge? Intermolecular dissociation energies of 1-naphthol complexes with linear molecules.

The stimulated-emission-pumping/resonant 2-photon ionization (SEP-R2PI) method was used to determine the intermolecular dissociation energies D0 of jet-cooled 1-naphthol(1NpOH)·S complexes, where S is a linear molecule (N2, CO, CO2, OCS, N2O, and ethyne) or symmetric-top molecule (2-butyne) that contains double or triple bonds. The dissociation energies D0(S0) are bracketed as follows: 6.68 ± 0.08 kJ/mol for S=N2, 7.7 ± 0.8 kJ/mol for CO, 12.07 ± 0.10 kJ/mol for CO2, 13.03 ± 0.01 kJ/mol for N2O, 14.34 ± 0.08 kJ/mol for ethyne, 15.0 ± 1.35 kJ/mol for OCS, and 29.6 ± 2.4 kJ/mol for 2-butyne. The minimum-energy structures, vibrational wavenumbers, and zero-point vibrational energies were calculated using the dispersion-corrected density functional theory methods such as B97-D3 and B3LYP-D3 with the def2-QZVPP basis set. These predict that N2 and CO are dispersively bound Face complexes (S bound to a naphthalene Face), while CO2, N2O, and OCS adsorb into the "Notch" between the naphthyl and OH groups; these are denoted as Notch complexes. Ethyne and 2-butyne form Edge complexes involving H-bonds from the -OH group of 1NpOH to the center of the molecule. The presence of a double or triple bond or an aromatic C=C bond within S does not lead to a specific calculated geometry (Face, Notch or Edge). However, a correlation exists between the structure and the sign of the quadrupole moment component Θzz of S: negative Θzz correlates with Face or Notch, while positive Θzz correlates with Edge geometries.

Intermolecular dissociation energies of hydrogen-bonded 1-naphthol complexes.

We have measured the intermolecular dissociation energies D 0 of supersonically cooled 1-naphthol (1NpOH) complexes with solvents S = furan, thiophene, 2,5-dimethylfuran, and tetrahydrofuran. The naphthol OH forms non-classical H-bonds with the aromatic π-electrons of furan, thiophene, and 2,5-dimethylfuran and a classical H-bond with the tetrahydrofuran O atom. Using the stimulated-emission pumping resonant two-photon ionization method, the ground-state D 0(S 0) values were bracketed as 21.8 ± 0.3 kJ/mol for furan, 26.6 ± 0.6 kJ/mol for thiophene, 36.5 ± 2.3 kJ/mol for 2,5-dimethylfuran, and 37.6 ± 1.3 kJ/mol for tetrahydrofuran. The dispersion-corrected density functional theory methods B97-D3, B3LYP-D3 (using the def2-TZVPP basis set), and ωB97X-D [using the 6-311++G(d,p) basis set] predict that the H-bonded (edge) isomers are more stable than the face isomers bound by dispersion; experimentally, we only observe edge isomers. We compare the calculated and experimental D 0 values and extend the comparison to the previously measured 1NpOH complexes with cyclopropane, benzene, water, alcohols, and cyclic ethers. The dissociation energies of the nonclassically H-bonded complexes increase roughly linearly with the average polarizability of the solvent, α ¯ (S). By contrast, the D 0 values of the classically H-bonded complexes are larger, increase more rapidly at low α ¯ (S), but saturate for large α ¯ (S). The calculated D 0(S 0) values for the cyclopropane, benzene, furan, and tetrahydrofuran complexes agree with experiment to within 1 kJ/mol and those of thiophene and 2,5-dimethylfuran are ∼3 kJ/mol smaller than experiment. The B3LYP-D3 calculated D 0 values exhibit the lowest mean absolute deviation (MAD) relative to experiment (MAD = 1.7 kJ/mol), and the B97-D3 and ωB97X-D MADs are 2.2 and 2.6 kJ/mol, respectively.

Intermolecular dissociation energies of dispersively bound complexes of aromatics with noble gases and nitrogen.

We measured accurate intermolecular dissociation energies D0 of the supersonic jet-cooled complexes of 1-naphthol (1NpOH) with the noble gases Ne, Ar, Kr, and Xe and with N2, using the stimulated-emission pumping resonant two-photon ionization method. The ground-state values D0(S0) for the 1NpOH⋅S complexes with S= Ar, Kr, Xe, and N2 were bracketed to be within ±3.5%; they are 5.67 ± 0.05 kJ/mol for S = Ar, 7.34 ± 0.07 kJ/mol for S = Kr, 10.8 ± 0.28 kJ/mol for S = Xe, 6.67 ± 0.08 kJ/mol for isomer 1 of the 1NpOH⋅N2 complex, and 6.62 ± 0.22 kJ/mol for the corresponding isomer 2. For S = Ne, the upper limit is D0 < 3.36 kJ/mol. The dissociation energies increase by 1%-5% upon S0 → S1 excitation of the complexes. Three dispersion-corrected density functional theory (DFT-D) methods (B97-D3, B3LYP-D3, and ωB97X-D) predict that the most stable form of these complexes involves dispersive binding to the naphthalene "face." A more weakly bound edge isomer is predicted in which the S moiety is H-bonded to the OH group of 1NpOH; however, no edge isomers were observed experimentally. The B97-D3 calculated dissociation energies D0(S0) of the face complexes with Ar, Kr, and N2 agree with the experimental values within <5%, but the D0(S0) for Xe is 12% too low. The B3LYP-D3 and ωB97X-D calculated D0(S0) values exhibit larger deviations to both larger and smaller dissociation energies. For comparison to 1-naphthol, we calculated the D0(S0) of the carbazole complexes with S = Ne, Ar, Kr, Xe, and N2 using the same DFT-D methods. The respective experimental values have been previously determined to be within <2%. Again, the B97-D3 results are in the best overall agreement with experiment.

Elusive Sulfurous Acid: Gas-Phase Basicity and IR Signature of the Protonated Species.

The ion corresponding to protonated sulfurous acid, H3SO3(+), has been successfully delivered into the gas phase by electrospray ionization of the solution of a suitable precursor and an in-source fragmentation process. The neutral acid is a highly elusive molecule. However, its gas-phase basicity has been ascertained by means of a kinetic study of proton-transfer reactivity. The structure of the H3SO3(+) sampled ion has been probed by IRMPD spectroscopy in two complementary IR frequency ranges in conjunction with density functional theory calculations and found to conform to a trihydroxosulfonium ion. The characteristic IR signatures may aid in deciphering the presence of this species in extraterrestrial atmospheres.

Switching on the fluorescence of 2-aminopurine by site-selective microhydration.

2-Aminopurine (2 AP) is a fluorescent isomer of adenine and has a fluorescence lifetime of ~11 ns in water. It is widely used in biochemical settings as a site-specific fluorescent probe of DNA and RNA structure and base-flipping and -folding. These assays assume that 2 AP is intrinsically strongly fluorescent. Here, we show this not to be the case, observing that gas-phase, jet-cooled 2-aminopurine and 9-methyl-2-aminopurine have very short fluorescence lifetimes (156 ps and 210 ps, respectively); they are, to all intents and purposes, non-fluorescent. We find that the lifetime of 2-aminopurine increases dramatically when it is part of a hydrate cluster, 2 AP · (H2O)n, where n = 1-3. Not only does it depend on the presence of water molecules, it also depends on the specific hydrogen-bonding site to which they attach and on the number of H2O molecules at that site. We selectively microhydrate 2-aminopurine at its sugar-edge, cis-amino or trans-amino sites and see that its fluorescence lifetime increases by 4, 50 and 95 times (to 14.5 ns), respectively.

Building up water-wire clusters: isomer-selective ultraviolet and infrared spectra of jet-cooled 2-aminopurine (H2O)n, n = 2 and 3.

2-Aminopurine (2AP) is an adenine analogue with a high fluorescence quantum yield in water solution, which renders it a useful real-time probe of DNA structure. We report the ultraviolet (UV) and infrared (IR) spectra of size-selected and jet-cooled 9H-2AP·(H2O)n clusters with n = 2 and 3. Mass- and species-specific UV/UV holeburning spectroscopy allows to separate the UV spectra of four cluster isomers in the 31,200­33,000 cm(­1) spectral region with electronic band origins at 31339, 31450, 31891, and 32163 cm(­1). Using IR/UV depletion spectroscopy in combination with B3LYP calculated harmonic vibrational frequencies, the H-bonding topologies of two isomers of the n = 2 and of two isomers of the n = 3 cluster are identified. One n = 2 isomer (denoted 2A) forms a water dimer chain between the N9H and N3 atoms at the sugar-edge site, the other isomer (denoted 2D) binds one H2O at the sugar-edge site and the other at the trans-amino site between the N1 atom and the NH2 group. For 2-aminopurine·(H2O)3, one isomer (denoted 3A) forms an H-bonded water wire at the sugar-edge site, while isomer 3B accommodates two H2O molecules at the sugar-edge and one at the trans-amino site. The approximate second-order coupled cluster (CC2) method predicts the adiabatic S1 ← S0 transitions of 9H-2-aminopurine and six water cluster isomers with n = 1­3 in very good agreement with the experimental 0(0)(0) frequencies, with differences of <0.6%. The stabilization of the S1(ππ*) state of 2-aminopurine by water clusters is highly regiospecific: Isomers with one or two H2O molecules H-bonded in the trans-amino position induce large spectra red shifts, corresponding to 1ππ* state stabilization of 10­12 kJ/mol, while water-wire cluster solvation at the sugar-edge leads to much smaller stabilization. The evolution of the IR spectra of the water-wire clusters with n = 1­3 that are H-bonded to the sugar-edge site is discussed. Qualitatively different regions (denoted I to IV) can be attributed to the different free and H-bonded OH, NH, NH2 and OH···OH water-wire stretch vibrations.

Isomer- and species-selective infrared spectroscopy of jet-cooled 7H- and 9H-2-aminopurine and 2-aminopurine·H2O clusters.

The infrared (IR) spectra of the supersonic-jet cooled 9H- and 7H-tautomers of 2-aminopurine (2AP) and of the 9H-2-aminopurine·H(2)O monohydrate clusters have been measured by mass- and species-selective IR-UV double resonance spectroscopy in the 3200-3900 cm(-1) region, covering the N-H and O-H stretching vibrations. The spectra are complemented by density functional (B3LYP and PW91) and by second-order Møller-Plesset (MP2) calculations of the electronic energies and vibrational frequenciesof the respective 2AP tautomers and clusters. The 9H- and 7H-2-aminopurine tautomers were definitively identified by the shifts of their NH and NH(2) symmetric and asymmetric stretching frequencies and by comparison to the B3LYP/TZVP calculated IR spectra. The H-bond topologies of the two previously observed 9H-2-aminopurine·H(2)O isomers (Sinha. R. K.; et al. J. Phys. Chem. A2011, 115, 6208) are definitively identified as the "sugar-edge" isomer A and the "trans-amino-bound" isomer B by comparing their IR spectra to the calculated frequencies and IR intensities of the cluster isomers A, B, C, and D, as well as to the IR spectrum of 9H-2AP. The sugar-edge isomer A involves N9-H···OH(2) and HOH···N3 hydrogen bonds and is predicted to be the most stable form. The amino-bound isomer B involves NH(2)···OH(2) and HOH···N1 hydrogen bonds and is calculated to lie 2.5 kJ/mol above isomer A. The H-bond topology of the "cis-amino-bound" isomer C is symmetrically related to isomer B, with a hydrogen bond to the N3 of the pyrimidine group. However, it is calculated to lie 7 kJ/mol above isomer A and indeed is not observed in the supersonic jet. Isomer D involves a single H-bond to the N7 position, is predicted to be 14 kJ/mol above A and is therefore not observed.

Diagnosing the protonation site of b2 peptide fragment ions using IRMPD in the X-H (X = O, N, and C) stretching region.

Charge-directed fragmentation has been shown to be the prevalent dissociation step for protonated peptides under the low-energy activation (eV) regime. Thus, the determination of the ion structure and, in particular, the characterization of the protonation site(s) of peptides and their fragments is a key approach to substantiate and refine peptide fragmentation mechanisms. Here we report on the characterization of the protonation site of oxazolone b(2) ions formed in collision-induced dissociation (CID) of the doubly protonated tryptic model-peptide YIGSR. In support of earlier work, here we provide complementary IR spectra in the 2800-3800 cm(-1) range acquired on a table-top laser system. Combining this tunable laser with a high power CO(2) laser to improve spectroscopic sensitivity, well resolved bands are observed, with an excellent correspondence to the IR absorption bands of the ring-protonated oxazolone isomer as predicted by quantum chemical calculations. In particular, it is shown that a band at 3445 cm(-1), corresponding to the asymmetric N-H stretch of the (nonprotonated) N-terminal NH(2) group, is a distinct vibrational signature of the ring-protonated oxazolone structure.

Naked five-coordinate Fe(III)(NO) porphyrin complexes: vibrational and reactivity features.

Model ferric heme nitrosyl complexes, [Fe(TPP)(NO)](+) and [Fe(TPFPP)(NO)](+), where TPP is the dianion of 5,10,15,20-tetrakis-phenyl-porphyrin and TPFPP is the dianion of 5,10,15,20-tetrakis-pentafluorophenyl-porphyrin, have been obtained as isolated species by the gas phase reaction of NO with [Fe(III)(TPP)](+) and [Fe(III) (TPFPP)](+) ions delivered in the gas phase by electrospray ionization, respectively. The so-formed nitrosyl complexes have been characterized by vibrational spectroscopy also exploiting (15)N-isotope substitution in the NO ligand. The characteristic NO stretching frequency is observed at 1825 and 1859 cm(-1) for [Fe(III)(TPP)(NO)](+) and [Fe(III)(TPFPP)(NO)](+) ions, respectively, providing reference values for genuine five-coordinate Fe(III)(NO) porphyrin complexes differing only for the presence of either phenyl or pentafluorophenyl substituents on the meso positions of the porphyrin ligand. The vibrational assignment is aided by hybrid density functional theory (DFT) calculations of geometry and electronic structure and frequency analysis which clearly support a singlet spin electronic state for both [Fe(TPP)(NO)](+) and [Fe(TPFPP)(NO)](+) complexes. Both TD-DFT and CASSCF calculations suggest that the singlet ground state is best described as Fe(II)(NO(+)) and that the open-shell AFC bonding scheme contribute for a high-energy excited state. The kinetics of the NO addition reaction in the gas phase are faster for [Fe(III)(TPFPP)](+) ions by a relatively small factor, though highly reliable because of a direct comparative evaluation. The study was aimed at gaining vibrational and reactivity data on five-coordinate Fe(III)(NO) porphyrin complexes, typically transient species in solution, ultimately to provide insights into the nature of the Fe(NO) interaction in heme proteins.

Low-lying excited states and nonradiative processes of the adenine analogues 7H- and 9H-2-aminopurine.

We have investigated the UV vibronic spectra and excited-state nonradiative processes of the 7H- and 9H-tautomers of jet-cooled 2-aminopurine (2AP) and of the 9H-2AP-d(4) and -d(5) isotopomers, using two-color resonant two-photon ionization spectroscopy at 0.3 and 0.045 cm(-1) resolution. The S(1) ← S(0) transition of 7H-2AP was observed for the first time. It lies ∼1600 cm(-1) below that of 9H-2AP, is ∼1000 times weaker and exhibits only in-plane vibronic excitations. In contrast, the S(1) ← S(0) spectra of 9H-2AP, 9H-2AP-d(4), and 9H-2AP-d(5) show numerous low-frequency bands that can be systematically assigned to overtone and combinations of the out-of-plane vibrations ν(1)', ν(2)', and ν(3)'. The intensity of these out-of-plane bands reflects an out-of-plane deformation in the (1)ππ∗(L(a)) state. Approximate second-order coupled-cluster theory also predicts that 2-aminopurine undergoes a "butterfly" deformation in its lowest (1)ππ∗ state. The rotational contours of the 9H-2AP, 9H-2AP-d(4), and 9H-2AP-d(5) 0(0)(0) bands and of eight vibronic bands of 9H-2AP up to 0(0)(0) + 600 cm(-1) exhibit 75%-80% in-plane (a∕b) polarization, which is characteristic for a (1)ππ∗ excitation. A 20%-25% c-axis (perpendicular) transition dipole moment component may indicate coupling of the (1)ππ∗ bright state to the close-lying (1)nπ∗ dark state. However, no (1)nπ∗ vibronic bands were detected below or up to 500 cm(-1) above the (1)ππ∗ 0(0)(0) band. Following (1)ππ∗ excitation, 9H-2AP undergoes a rapid nonradiative transition to a lower-lying long-lived state with a lifetime ≥5 µs. The ionization potential of 9H-2AP was measured via the (1)ππ∗ state (IP = 8.020 eV) and the long-lived state (IP > 9.10 eV). The difference shows that the long-lived state lies ≥1.08 eV below the (1)ππ∗ state. Time-dependent B3LYP calculations predict the (3)ππ∗ (T(1)) state 1.12 eV below the (1)ππ∗ state, but place the (1)nπ∗ (S(1)) state close to the (1)ππ∗ state, implying that the long-lived state is the lowest triplet (T(1)) and not the (1)nπ∗ state.