State- and time-resolved observation of ultrafast intermolecular proton transfer in hydrated biomolecules
Status PubMed-not-MEDLINE Jazyk angličtina Země Anglie, Velká Británie Médium electronic
Typ dokumentu časopisecké články
Grantová podpora
12325406
National Natural Science Foundation of China (National Science Foundation of China)
92261201
National Natural Science Foundation of China (National Science Foundation of China)
PubMed
40595688
PubMed Central
PMC12214634
DOI
10.1038/s41467-025-61305-z
PII: 10.1038/s41467-025-61305-z
Knihovny.cz E-zdroje
- Publikační typ
- časopisecké články MeSH
Proton transfer underpins number of chemical and biochemical processes, yet its sub-100 fs dynamics have rarely been captured in real time. Here, we report direct and time-resolved observation of ionizing radiation-induced proton transfer in a heteroaromatic hydrate: the pyrrole-water complex. Both the electron-impact and strong-field laser experiments create a locally and doubly charged pyrrole unit (C4H5N2+), which immediately (within 60 fs) donates a proton to the adjacent H2O, generating deprotonated C4H4N+ and hydronium H3O+ cations that subsequently undergo Coulomb explosion. The electron-impact experiments directly revealed initial states and provided dynamical insights through fragment ions and electron coincidence momentum imaging. The strong-field femtosecond laser experiments tracked the ultrafast dynamics of proton transfer; complementary ab initio calculations unraveled the dynamical details. The 50-60 fs proton transfer qualifies as one of the fastest acid-base reactions observed to date. This study offers a novel perspective on radiation-induced proton transfer in hydrated biomolecules.
Zobrazit více v PubMed
Mohammed, O. F., Pines, D., Dreyer, J., Pines, E. & Nibbering, E. T. J. Sequential proton transfer through water bridges in acid-base reactions. PubMed DOI
Nocera, D. G. Proton-coupled electron transfer: The engine of energy conversion and storage. PubMed DOI
Hvasanov, D., Peterson, J. R. & Thordarson, P. Self-assembled light-driven photosynthetic-respiratory electron transport chain hybrid proton pump. DOI
Wikström, M., Sharma, V., Kaila, V. R. I., Hosler, J. P. & Hummer, G. New perspectives on proton pumping in cellular respiration. PubMed DOI
Eigen, M. Immeasurably Fast Reactions.
Eigen, M. Protonenübertragung, säure-base-katalyse und enzymatische hydrolyse. teil i: Elementarvorgänge. DOI
Agmon, N. et al. Protons and hydroxide ions in aqueous systems. PubMed DOI PMC
Svoboda, O., Hollas, D., Ončák, M. & Slavíček, P. Reaction selectivity in an ionized water dimer: nonadiabatic ab initio dynamics simulations. PubMed DOI
Schnorr, K. et al. Direct tracking of ultrafast proton transfer in water dimers. PubMed DOI PMC
Tachikawa, H. Ionization dynamics of the small-sized water clusters: a direct ab initio trajectory study. DOI
Furuhama, A., Dupuis, M. & Hirao, K. Reactions associated with ionization in water: A direct ab initio dynamics study of ionization in (H PubMed DOI
Marsalek, O. et al. Chasing charge localization and chemical reactivity following photoionization in liquid water. PubMed DOI
Loh, Z.-H. et al. Observation of the fastest chemical processes in the radiolysis of water. PubMed DOI
Yin, Z. et al. Femtosecond proton transfer in urea solutions probed by x-ray spectroscopy. PubMed DOI PMC
Shakya, Y., Inhester, L., Arnold, C., Welsch, R. & Santra, R. Ultrafast time-resolved x-ray absorption spectroscopy of ionized urea and its dimer through ab initio nonadiabatic dynamics. PubMed DOI PMC
Lin, M.-F. et al. Imaging the short-lived hydroxyl-hydronium pair in ionized liquid water. PubMed DOI
Richter, C. et al. Competition between proton transfer and intermolecular coulombic decay in water. PubMed DOI PMC
Thürmer, S. et al. On the nature and origin of dicationic, charge-separated species formed in liquid water on x-ray irradiation. PubMed DOI
Bernhard, W. A. DOI
Florián, J. & Leszczyński, J. Spontaneous DNA mutations induced by proton transfer in the guanine ⋅ cytosine base pairs: An energetic perspective.
Kumar, A. & Sevilla, M. D. Proton-coupled electron transfer in dna on formation of radiation-produced ion radicals. PubMed DOI PMC
Srivastava, R. The role of proton transfer on mutations. PubMed DOI PMC
Golan, A. et al. Ionization of dimethyluracil dimers leads to facile proton transfer in the absence of hydrogen bonds. PubMed DOI
Agmon, N. The Grotthuss mechanism. DOI
Khistyaev, K. et al. Proton transfer in nucleobases is mediated by water. PubMed DOI
Johny, M. et al. Water is a radiation protection agent for ionised pyrrole. PubMed DOI
Alizadeh, E., Orlando, T. M. & Sanche, L. Biomolecular damage induced by ionizing radiation: The direct and indirect effects of low-energy electrons on dna. PubMed DOI
Pimblott, S. M. & LaVerne, J. A. Production of low-energy electrons by ionizing radiation. DOI
Bhardwaj, V., Gumber, D., Abbot, V., Dhiman, S. & Sharma, P. Pyrrole: a resourceful small molecule in key medicinal hetero-aromatics. DOI
Chinchilla, R., Nájera, C. & Yus, M. Metalated heterocycles and their applications in synthetic organic chemistry. PubMed DOI
Skitnevskaya, A. D. et al. Two-sided impact of water on the relaxation of inner-valence vacancies of biologically relevant molecules. PubMed DOI
van den Brom, A. J. et al. Photodissociation and photoionization of pyrrole following the multiphoton excitation at 243 and 364.7 nm. PubMed DOI
Ullrich, J. et al. Recoil-ion and electron momentum spectroscopy: reaction-microscopes. DOI
Dörner, R. et al. Cold Target Recoil Ion Momentum Spectroscopy: a ‘momentum microscope’ to view atomic collision dynamics. DOI
Zobeley, J., Santra, R. & Cederbaum, L. S. Electronic decay in weakly bound heteroclusters: Energy transfer versus electron transfer. DOI
Förstel, M., Mucke, M., Arion, T., Bradshaw, A. M. & Hergenhahn, U. Autoionization mediated by electron transfer. PubMed DOI
Sakai, K. et al. Electron-transfer-mediated decay and interatomic coulombic decay from the triply ionized states in argon dimers. PubMed DOI
Cederbaum, L. S., Zobeley, J. & Tarantelli, F. Giant intermolecular decay and fragmentation of clusters. DOI
Wang, Z. et al. Directly imaging excited state-resolved transient structures of water induced by valence and inner-shell ionisation. PubMed DOI PMC
Sarkar, S., Ramanathan, N. & Sundararajan, K. Effect of methyl substitution on the N-H ⋯O interaction in complexes of pyrrole with water, methanol, and dimethyl ether: Matrix isolation infrared spectroscopy and ab initio computational studies. PubMed
Zhou, J. et al. Ultrafast charge and proton transfer in doubly ionized ammonia dimers. PubMed DOI
Dereka, B. et al. Crossover from hydrogen to chemical bonding. PubMed DOI
Kats, D. & Werner, H.-J. Multi-state local complete active space second-order perturbation theory using pair natural orbitals (PNO-MS-CASPT2). PubMed DOI
Ren, X. et al. Ultrafast energy transfer between PubMed DOI
Zhou, J. et al. Intermolecular charge transfer induced fragmentation of formic acid dimers. PubMed DOI
Britt, E. et al. Ultrafast dissociation dynamics of the sensitive explosive ethylene glycol dinitrate. PubMed DOI PMC
Frisch, M. J. et al. Gaussian 16 Revision A.03 https://gaussian.com/gaussian16/. (2016).
Schlegel, H. B. et al. Ab initio molecular dynamics: Propagating the density matrix with gaussian orbitals. DOI
Iyengar, S. S. et al. Ab initio molecular dynamics: Propagating the density matrix with gaussian orbitals. ii. generalizations based on mass-weighting, idempotency, energy conservation and choice of initial conditions. DOI
Schlegel, H. B. et al. Ab initio molecular dynamics: Propagating the density matrix with gaussian orbitals. iii. comparison with born-oppenheimer dynamics. DOI
Vendrell, O., Stoychev, S. D. & Cederbaum, L. S. Generation of highly damaging H PubMed DOI
Zhou, J. et al. Real-time observation of ultrafast molecular rotation in weakly bound dimers. DOI
Tully, J. C. Molecular dynamics with electronic transitions. DOI
Slavíček, P., Hollas, D., Svoboda, O. & Ončák, M. ABIN, version 1.1 https://github.com/PHOTOX/ABIN (2015).
Shiozaki, T. BAGEL: Brilliantly Advanced General Electronic-structure Library. DOI
Ceriotti, M., Bussi, G. & Parrinello, M. Nuclear quantum effects in solids using a colored-noise thermostat. PubMed DOI
Ceriotti, M., Bussi, G. & Parrinello, M. Colored-noise thermostats àla Carte. DOI
Ceriotti, M., Manolopoulos, D. E. & Parrinello, M. Accelerating the convergence of path integral dynamics with a generalized Langevin equation. PubMed DOI
Titov, A. V., Ufimtsev, I. S., Luehr, N. & Martinez, T. J. Generating efficient quantum chemistry codes for novel architectures. PubMed DOI
Epifanovsky, E. et al. Software for the frontiers of quantum chemistry: An overview of developments in the q-chem 5 package. PubMed DOI PMC