State- and time-resolved observation of ultrafast intermolecular proton transfer in hydrated biomolecules
Status PubMed-not-MEDLINE Jazyk angličtina Země Velká Británie, Anglie 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
Nocera, D. G. Proton-coupled electron transfer: The engine of energy conversion and storage. PubMed
Hvasanov, D., Peterson, J. R. & Thordarson, P. Self-assembled light-driven photosynthetic-respiratory electron transport chain hybrid proton pump.
Wikström, M., Sharma, V., Kaila, V. R. I., Hosler, J. P. & Hummer, G. New perspectives on proton pumping in cellular respiration. PubMed
Eigen, M. Immeasurably Fast Reactions.
Eigen, M. Protonenübertragung, säure-base-katalyse und enzymatische hydrolyse. teil i: Elementarvorgänge.
Agmon, N. et al. Protons and hydroxide ions in aqueous systems. PubMed PMC
Svoboda, O., Hollas, D., Ončák, M. & Slavíček, P. Reaction selectivity in an ionized water dimer: nonadiabatic ab initio dynamics simulations. PubMed
Schnorr, K. et al. Direct tracking of ultrafast proton transfer in water dimers. PubMed PMC
Tachikawa, H. Ionization dynamics of the small-sized water clusters: a direct ab initio trajectory study.
Furuhama, A., Dupuis, M. & Hirao, K. Reactions associated with ionization in water: A direct ab initio dynamics study of ionization in (H PubMed
Marsalek, O. et al. Chasing charge localization and chemical reactivity following photoionization in liquid water. PubMed
Loh, Z.-H. et al. Observation of the fastest chemical processes in the radiolysis of water. PubMed
Yin, Z. et al. Femtosecond proton transfer in urea solutions probed by x-ray spectroscopy. PubMed 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 PMC
Lin, M.-F. et al. Imaging the short-lived hydroxyl-hydronium pair in ionized liquid water. PubMed
Richter, C. et al. Competition between proton transfer and intermolecular coulombic decay in water. PubMed PMC
Thürmer, S. et al. On the nature and origin of dicationic, charge-separated species formed in liquid water on x-ray irradiation. PubMed
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 PMC
Srivastava, R. The role of proton transfer on mutations. PubMed PMC
Golan, A. et al. Ionization of dimethyluracil dimers leads to facile proton transfer in the absence of hydrogen bonds. PubMed
Agmon, N. The Grotthuss mechanism.
Khistyaev, K. et al. Proton transfer in nucleobases is mediated by water. PubMed
Johny, M. et al. Water is a radiation protection agent for ionised pyrrole. PubMed
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
Pimblott, S. M. & LaVerne, J. A. Production of low-energy electrons by ionizing radiation.
Bhardwaj, V., Gumber, D., Abbot, V., Dhiman, S. & Sharma, P. Pyrrole: a resourceful small molecule in key medicinal hetero-aromatics.
Chinchilla, R., Nájera, C. & Yus, M. Metalated heterocycles and their applications in synthetic organic chemistry. PubMed
Skitnevskaya, A. D. et al. Two-sided impact of water on the relaxation of inner-valence vacancies of biologically relevant molecules. PubMed
van den Brom, A. J. et al. Photodissociation and photoionization of pyrrole following the multiphoton excitation at 243 and 364.7 nm. PubMed
Ullrich, J. et al. Recoil-ion and electron momentum spectroscopy: reaction-microscopes.
Dörner, R. et al. Cold Target Recoil Ion Momentum Spectroscopy: a ‘momentum microscope’ to view atomic collision dynamics.
Zobeley, J., Santra, R. & Cederbaum, L. S. Electronic decay in weakly bound heteroclusters: Energy transfer versus electron transfer.
Förstel, M., Mucke, M., Arion, T., Bradshaw, A. M. & Hergenhahn, U. Autoionization mediated by electron transfer. PubMed
Sakai, K. et al. Electron-transfer-mediated decay and interatomic coulombic decay from the triply ionized states in argon dimers. PubMed
Cederbaum, L. S., Zobeley, J. & Tarantelli, F. Giant intermolecular decay and fragmentation of clusters.
Wang, Z. et al. Directly imaging excited state-resolved transient structures of water induced by valence and inner-shell ionisation. PubMed 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
Dereka, B. et al. Crossover from hydrogen to chemical bonding. PubMed
Kats, D. & Werner, H.-J. Multi-state local complete active space second-order perturbation theory using pair natural orbitals (PNO-MS-CASPT2). PubMed
Ren, X. et al. Ultrafast energy transfer between PubMed
Zhou, J. et al. Intermolecular charge transfer induced fragmentation of formic acid dimers. PubMed
Britt, E. et al. Ultrafast dissociation dynamics of the sensitive explosive ethylene glycol dinitrate. PubMed 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.
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.
Schlegel, H. B. et al. Ab initio molecular dynamics: Propagating the density matrix with gaussian orbitals. iii. comparison with born-oppenheimer dynamics.
Vendrell, O., Stoychev, S. D. & Cederbaum, L. S. Generation of highly damaging H PubMed
Zhou, J. et al. Real-time observation of ultrafast molecular rotation in weakly bound dimers.
Tully, J. C. Molecular dynamics with electronic transitions.
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.
Ceriotti, M., Bussi, G. & Parrinello, M. Nuclear quantum effects in solids using a colored-noise thermostat. PubMed
Ceriotti, M., Bussi, G. & Parrinello, M. Colored-noise thermostats àla Carte.
Ceriotti, M., Manolopoulos, D. E. & Parrinello, M. Accelerating the convergence of path integral dynamics with a generalized Langevin equation. PubMed
Titov, A. V., Ufimtsev, I. S., Luehr, N. & Martinez, T. J. Generating efficient quantum chemistry codes for novel architectures. PubMed
Epifanovsky, E. et al. Software for the frontiers of quantum chemistry: An overview of developments in the q-chem 5 package. PubMed PMC