Infrared spectroscopy of isolated nucleotides. 1. The cyclic 3′,5′-adenosine monophosphate anion

Chiavarino, Barbara; Crestoni, Maria Elisa; Fornarini, Simonetta; Lanucara, Francesco; Lemaire, Joël; Maître, Philippe; Scuderi, Debora

doi:10.1016/j.ijms.2007.11.011

Cited by 43 publications

(70 citation statements)

References 67 publications

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“…2). Chiavarino et al [37] performed infrared multiphoton dissociation (IRMPD) experiments on [cAMP-H] − and observed A − as their only fragment channel. This difference in fragment ion abundance, when compared to the results of the present study, can be explained by considering the way in which energy is deposited into the molecule.…”

Section: Relative Abundance Of Fragmentsmentioning

confidence: 99%

“…If a hot molecule fragments on a time scale that is fast compared to the heating process, one can expect that only the lowest energy fragment channel will be observed. The IRMPD work by Chiavarino et al [37] therefore suggests that A − is the lowest energy fragment channel for [cAMP-H] − . In contrast to IRMPD, UV activation deposits a large amount of energy in a single event (fast heating).…”

Section: Relative Abundance Of Fragmentsmentioning

confidence: 99%

See 1 more Smart Citation

UV-photodissociation of non-cyclic and cyclic mononucleotides

Marcum

Kaufman

Weber

2011

International Journal of Mass Spectrometry

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Section: Relative Abundance Of Fragmentsmentioning

confidence: 99%

Section: Relative Abundance Of Fragmentsmentioning

confidence: 99%

UV-photodissociation of non-cyclic and cyclic mononucleotides

Marcum

Kaufman

Weber

2011

International Journal of Mass Spectrometry

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“…Scuderi and co-workers have also reported phosphate stretches and bends to the blue of the calculated frequencies. 15 We tentatively assign the experimental peak centered at 1245 cm −1 to these two modes. The most intense peak in the spectrum corresponds to both C5′−OPO 3 stretches separated by 27 cm −1 calculated at 991 and 1018 cm −1 .…”

Section: Methodsmentioning

confidence: 80%

Resonant Infrared Multiple Photon Dissociation Spectroscopy of Anionic Nucleotide Monophosphate Clusters

et al. 2015

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ABSTRACT:We report mid-infrared spectra and potential energy surfaces of four anionic, 2′-deoxynucleotide-5′-monophosphates (dNMPs) and the ionic DNA pairs [dGMP-dCMP−H] 1− , [dAMP-dTMP−H] 1− with a total charge of the complex equal to −1. We recorded IR action spectra by resonant IR multiple-photon dissociation (IRMPD) using the FELIX free electron laser. The potential energy surface study employed an onthe-fly molecular dynamics quenching method (MD/Q), using a semiempirical AM1 method, followed by an optimization of the most stable structures using density functional theory. By employing infrared multiple-photon dissociation (IRMPD) spectroscopy in combination with high-level computational methods, we aim at a better understanding of the hydrogen bonding competition between the phosphate moieties and the nucleobases. We find that, unlike in multimer double stranded DNA structures, the hydrogen bonds in these isolated nucleotide pairs are predominantly formed between the phosphate groups. This intermolecular interaction appears to exceed the stabilization energy resulting from base pairing and directs the overall cluster structure and alignment.

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“…IR photon absorption is rather monitored in an indirect way through the photofragmentation process activated when the radiation is resonant with active vibrational modes of the sampled ion. The ensuing 'action' spectroscopy relies on an IR (multiple) photon dissociation (IRPD or IRMPD) process whose yield is monitored as a function of the IR wavenumber [27,28]. The heme nitrosyl complexes undergo loss of NO as the only photofragmentation path (Scheme 3).…”

Section: Electronic Structure and Ligand Vibrations In Feno Porphyrinmentioning

confidence: 99%

Nitrosyl–heme and anion–arene complexes: structure, reactivity and spectroscopy

Crestoni

Chiavarino

Fornarini

2015

Pure and Applied Chemistry

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Two topics are selected and illustrated to exemplify (i) a biological and (ii) an organic ionic intermediate. The reactivity behavior of NO adducts with ferric and ferrous hemes has shown remarkable similarities when examined in the gas phase, demonstrating that the largely different NO affinity displayed in solution and in biological media is due to the different coordination environment. In fact, ferrous hemes present a vacant or highly labile axial coordination site, prone to readily bind NO. The vibrational signatures of the NO ligand have also been probed in vacuo for the first time in the nitrosyl complexes deriving from ferrous and ferric hemes under strictly comparable five-coordination at the metal center. Negatively charged σ-adducts, from the association of anions with 1,3,5-trinitrobenzene, an exemplary π-electron-deficient arene, have been probed by IRMPD spectroscopy and found to display variable binding motifs from a strongly covalent σ-adduct (Meisenheimer complex) to a weakly covalent σ-complex, depending on the anion basicity.

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Infrared spectroscopy of isolated nucleotides. 1. The cyclic 3′,5′-adenosine monophosphate anion

Cited by 43 publications

References 67 publications

UV-photodissociation of non-cyclic and cyclic mononucleotides

UV-photodissociation of non-cyclic and cyclic mononucleotides

Resonant Infrared Multiple Photon Dissociation Spectroscopy of Anionic Nucleotide Monophosphate Clusters

Nitrosyl–heme and anion–arene complexes: structure, reactivity and spectroscopy

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