2024
Bochenkova A V
Multiconfigurational Methods Including XMCQDPT2 Theory for Excited States of Light-Sensitive Biosystems Book Chapter
In: Yáñez, Manuel; Boyd, Russell J. (Ed.): Comprehensive Computational Chemistry (First Edition), vol. 4, pp. 141-157, Elsevier, Oxford, First Edition, 2024, ISBN: 978-0-12-823256-9.
@inbook{BOCHENKOVA2024141,
title = {Multiconfigurational Methods Including XMCQDPT2 Theory for Excited States of Light-Sensitive Biosystems},
author = {Anastasia V. Bochenkova},
editor = {Manuel Yáñez and Russell J. Boyd},
url = {https://www.sciencedirect.com/science/article/pii/B9780128219782001331},
doi = {10.1016/B978-0-12-821978-2.00133-1},
isbn = {978-0-12-823256-9},
year = {2024},
date = {2024-01-01},
urldate = {2024-01-01},
booktitle = {Comprehensive Computational Chemistry (First Edition)},
volume = {4},
pages = {141-157},
publisher = {Elsevier},
address = {Oxford},
edition = {First Edition},
series = {Comprehensive Computational Chemistry (First Edition)},
abstract = {Multiconfigurational methods are often required for treating extended regions of potential energy surfaces of excited and ground electronic states and their crossings. Among various multiconfigurational approaches, multireference perturbation theory (MR-PT) methods, which are based on multiconfigurational reference wave functions, are widely employed in the studies of photochemistry of large molecular systems. This is due to their favorable cost-to-performance ratio as compared to more accurate MR approaches. In this chapter, we discuss a hierarchy of MR-PT2 methods, which use both single-state (SS) and multi-state (MS) strategies with emphasis on their theoretical foundations, relations to each other and applicability to specific problems. Formulation of the MS-MR-PT2 methods are directly related to the theory of effective Hamiltonians, which is briefly described here. We underline the importance of invariance properties and discuss the XMCQDPT2 method in more detail. As a representative example, we also provide its application to the studies of the photoresponse of retinal protonated Schiff base – a chromophore of vision.},
keywords = {},
pubstate = {published},
tppubtype = {inbook}
}
2023
Ostrovsky M A, Smitienko O A, Bochenkova A V, Feldman T B
Similarities and Differences in Photochemistry of Type I and Type II Rhodopsins Journal Article
In: Biochemistry (Moscow), vol. 88, no. 10, pp. 1528–1543, 2023, ISSN: 16083040.
@article{Ostrovsky2023b,
title = {Similarities and Differences in Photochemistry of Type I and Type II Rhodopsins},
author = {Mikhail A. Ostrovsky and Olga A. Smitienko and Anastasia V. Bochenkova and Tatiana B. Feldman},
url = {https://link.springer.com/article/10.1134/S0006297923100097},
doi = {10.1134/S0006297923100097},
issn = {16083040},
year = {2023},
date = {2023-10-01},
urldate = {2023-10-01},
journal = {Biochemistry (Moscow)},
volume = {88},
number = {10},
pages = {1528–1543},
publisher = {Springer},
abstract = {Abstract: The diversity of the retinal-containing proteins (rhodopsins) in nature is extremely large. Fundamental similarity of the structure and photochemical properties unites them into one family. However, there is still a debate about the origin of retinal-containing proteins: divergent or convergent evolution? In this review, based on the results of our own and literature data, a comparative analysis of the similarities and differences in the photoconversion of the rhodopsin of types I and II is carried out. The results of experimental studies of the forward and reverse photoreactions of the bacteriorhodopsin (type I) and visual rhodopsin (type II) rhodopsins in the femto- and picosecond time scale, photo-reversible reaction of the octopus rhodopsin (type II), photovoltaic reactions, as well as quantum chemical calculations of the forward photoreactions of bacteriorhodopsin and visual rhodopsin are presented. The issue of probable convergent evolution of type I and type II rhodopsins is discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Boichenko A N, Bochenkova A V
Calculating Vertical Ionization Energies of Hydrated Biological Chromophores Based on Multiconfigurational Perturbation Theory Journal Article
In: Russian Journal of Physical Chemistry A 2023 97:4, vol. 97, no. 4, pp. 763–767, 2023, ISSN: 1531-863X.
@article{Boichenko2023,
title = {Calculating Vertical Ionization Energies of Hydrated Biological Chromophores Based on Multiconfigurational Perturbation Theory},
author = {A. N. Boichenko and A. V. Bochenkova},
url = {https://link.springer.com/article/10.1134/S0036024423040088},
doi = {10.1134/S0036024423040088},
issn = {1531-863X},
year = {2023},
date = {2023-04-01},
journal = {Russian Journal of Physical Chemistry A 2023 97:4},
volume = {97},
number = {4},
pages = {763–767},
publisher = {Springer},
abstract = {Here we introduce a methodology for calculating vertical detachment energies (VDE) and vertical ionization energies (VIE) of anionic and neutral chromophores in aqueous environment. The proposed method is based on the extended multiconfigurational quasidegenerate perturbation theory coupled to the explicit treatment of solvent effects in the frame of the effective fragment potential method. We show that the solvent polarization contribution must be considered for getting accurate quantitative estimations of VDEs and VIEs. The calculated values of VDE for phenolate (7.3 eV) and VIE for phenol (7.9 eV) in aqueous environment are in good agreement with the experimental results obtained using X-ray and multiphoton UV photoelectron spectroscopy. Our approach will be useful for studying processes of photoinduced electron transfer from anionic as well as neutral biological chromophores in aqueous solution.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sinenka H, Bruyakin Y, Zaitsevskii A, Isaev T, Bochenkova A V
Zwitterions Functionalized by Optical Cycling Centers: Toward Laser-Coolable Polyatomic Molecular Cations Journal Article
In: Journal of Physical Chemistry Letters, vol. 14, pp. 5784–5790, 2023, ISSN: 1948-7185.
@article{sinenka2023zwitterions568824647,
title = {Zwitterions Functionalized by Optical Cycling Centers: Toward Laser-Coolable Polyatomic Molecular Cations},
author = {Hryhory Sinenka and Yurii Bruyakin and Andrei Zaitsevskii and Timur Isaev and Anastasia V. Bochenkova},
doi = {10.1021/acs.jpclett.3c00904},
issn = {1948-7185},
year = {2023},
date = {2023-01-01},
journal = {Journal of Physical Chemistry Letters},
volume = {14},
pages = {5784–5790},
publisher = {United States},
address = {United States},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Boichenko A N, Bochenkova A V
Accurate Vertical Electron Detachment Energies and Multiphoton Resonant Photoelectron Spectra of Biochromophore Anions in Aqueous Solution Journal Article
In: Journal of Chemical Theory and Computation, vol. 19, no. 13, pp. 4088-4099, 2023, (PMID: 37146177).
@article{doi:10.1021/acs.jctc.2c01082,
title = {Accurate Vertical Electron Detachment Energies and Multiphoton Resonant Photoelectron Spectra of Biochromophore Anions in Aqueous Solution},
author = {Anton N. Boichenko and Anastasia V. Bochenkova},
url = {https://doi.org/10.1021/acs.jctc.2c01082},
doi = {10.1021/acs.jctc.2c01082},
year = {2023},
date = {2023-01-01},
journal = {Journal of Chemical Theory and Computation},
volume = {19},
number = {13},
pages = {4088-4099},
note = {PMID: 37146177},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Robertson K, Fortune W G, Davies J A, Boichenko A, Scholz M S, Tau O, Bochenkova A V, Fielding H H
Wavelength dependent mechanism of phenolate photooxidation in aqueous solution Journal Article
In: Chemical Science, vol. 14, iss. 12, pp. 3257-3264, 2023.
@article{D3SC00016H,
title = {Wavelength dependent mechanism of phenolate photooxidation in aqueous solution},
author = {Kate Robertson and William G. Fortune and Julia A. Davies and Anton N. Boichenko and Michael S. Scholz and Omri Tau and Anastasia V. Bochenkova and Helen H. Fielding},
url = {http://dx.doi.org/10.1039/D3SC00016H},
doi = {10.1039/D3SC00016H},
year = {2023},
date = {2023-01-01},
urldate = {2023-01-01},
journal = {Chemical Science},
volume = {14},
issue = {12},
pages = {3257-3264},
publisher = {The Royal Society of Chemistry},
abstract = {Phenolate photooxidation is integral to a range of biological processes, yet the mechanism of electron ejection has been disputed. Here, we combine femtosecond transient absorption spectroscopy, liquid-microjet photoelectron spectroscopy and high-level quantum chemistry calculations to investigate the photooxidation dynamics of aqueous phenolate following excitation at a range of wavelengths, from the onset of the S0–S1 absorption band to the peak of the S0–S2 band. We find that for λ ≥ 266 nm, electron ejection occurs from the S1 state into the continuum associated with the contact pair in which the PhO˙ radical is in its ground electronic state. In contrast, we find that for λ ≤ 257 nm, electron ejection also occurs into continua associated with contact pairs containing electronically excited PhO˙ radicals and that these contact pairs have faster recombination times than those containing PhO˙ radicals in their ground electronic state.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aslopovsky V R, Scherbinin A V, Kleshchina N N, Bochenkova A V
Impact of the Protein Environment on Two-Photon Absorption Cross-Sections of the GFP Chromophore Anion Resolved at the XMCQDPT2 Level of Theory Journal Article
In: International Journal of Molecular Sciences, vol. 24, no. 14, 2023, ISSN: 1422-0067.
@article{ijms241411266,
title = {Impact of the Protein Environment on Two-Photon Absorption Cross-Sections of the GFP Chromophore Anion Resolved at the XMCQDPT2 Level of Theory},
author = {Vladislav R. Aslopovsky and Andrei V. Scherbinin and Nadezhda N. Kleshchina and Anastasia V. Bochenkova},
url = {https://www.mdpi.com/1422-0067/24/14/11266},
doi = {10.3390/ijms241411266},
issn = {1422-0067},
year = {2023},
date = {2023-01-01},
journal = {International Journal of Molecular Sciences},
volume = {24},
number = {14},
abstract = {The search for fluorescent proteins with large two-photon absorption (TPA) cross-sections and improved brightness is required for their efficient use in bioimaging. Here, we explored the impact of a single-point mutation close to the anionic form of the GFP chromophore on its TPA activity. We considered the lowest-energy transition of EGFP and its modification EGFP T203I. We focused on a methodology for obtaining reliable TPA cross-sections for mutated proteins, based on conformational sampling using molecular dynamics simulations and a high-level XMCQDPT2-based QM/MM approach. We also studied the numerical convergence of the sum-over-states formalism and provide direct evidence for the applicability of the two-level model for calculating TPA cross-sections in EGFP. The calculated values were found to be very sensitive to changes in the permanent dipole moments between the ground and excited states and highly tunable by internal electric field of the protein environment. In the case of the GFP chromophore anion, even a single hydrogen bond was shown to be capable of drastically increasing the TPA cross-section. Such high tunability of the nonlinear photophysical properties of the chromophore anions can be used for the rational design of brighter fluorescent proteins for bioimaging using two-photon laser scanning microscopy.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Chaliy V A, Kelbysheva E S, Ezernitskaya M G, Strelkova T V, Bochenkova A V, Medvedev M G, Telegina L N
CO-Preserving Photoinduced Transfer of Cymantrenyl Moiety: a Tandem Experimental and Computational Investigation Journal Article
In: Chemistry – A European Journal, vol. 29, no. 29, pp. e202203949, 2023.
@article{https://doi.org/10.1002/chem.202203949,
title = {CO-Preserving Photoinduced Transfer of Cymantrenyl Moiety: a Tandem Experimental and Computational Investigation},
author = {Vasiliy A. Chaliy and Elena S. Kelbysheva and Mariam G. Ezernitskaya and Tatyana V. Strelkova and Anastasia V. Bochenkova and Michael G. Medvedev and Lyudmila N. Telegina},
url = {https://chemistry-europe.onlinelibrary.wiley.com/doi/abs/10.1002/chem.202203949},
doi = {https://doi.org/10.1002/chem.202203949},
year = {2023},
date = {2023-01-01},
journal = {Chemistry – A European Journal},
volume = {29},
number = {29},
pages = {e202203949},
abstract = {Abstract Cyclopentadienyl manganese tricarbonyl (cymantrene) is known to undergo photochemical reactions by releasing one of its CO ligands. Here we present the first example of a photorearrangement of a cymantrenylmethyl fragment, where it retains all its three CO ligands. A tandem experimental and DFT (density functional theory)-based computational investigation allows us to explain this unexpected behavior: the rearrangement, indeed, begins with the release of one CO ligand, but cage effect of the solvent captures this CO molecule, allowing it to rapidly reattach once the rearrangement takes place.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Andersen L H, Rasmussen A P, Pedersen H B, Beletsan O B, Bochenkova A V
High-Resolution Spectroscopy and Selective Photoresponse of Cryogenically Cooled Green Fluorescent Protein Chromophore Anions Journal Article
In: The Journal of Physical Chemistry Letters, vol. 14, no. 28, pp. 6395-6401, 2023, (PMID: 37428615).
@article{doi:10.1021/acs.jpclett.3c01452,
title = {High-Resolution Spectroscopy and Selective Photoresponse of Cryogenically Cooled Green Fluorescent Protein Chromophore Anions},
author = {Lars H. Andersen and Anne P. Rasmussen and Henrik B. Pedersen and Oleg B. Beletsan and Anastasia V. Bochenkova},
url = {https://doi.org/10.1021/acs.jpclett.3c01452},
doi = {10.1021/acs.jpclett.3c01452},
year = {2023},
date = {2023-01-01},
journal = {The Journal of Physical Chemistry Letters},
volume = {14},
number = {28},
pages = {6395-6401},
note = {PMID: 37428615},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2022
Bochenkova A V, Andersen L H
Action-Absorption Spectroscopy at the Band Origin of the Deprotonated Green Fluorescent Protein Chromophore In Vacuo Journal Article
In: J Phys Chem Lett, vol. 13, no. 29, pp. 6683–6685, 2022, ISSN: 1948-7185.
@article{pmid35848550,
title = {Action-Absorption Spectroscopy at the Band Origin of the Deprotonated Green Fluorescent Protein Chromophore In Vacuo},
author = {Anastasia V Bochenkova and Lars H Andersen},
doi = {10.1021/acs.jpclett.2c01791},
issn = {1948-7185},
year = {2022},
date = {2022-07-01},
journal = {J Phys Chem Lett},
volume = {13},
number = {29},
pages = {6683--6685},
abstract = {The application of action spectroscopy in connection with determination of the S to S band origin in the GFP anion model chromophore (deprotonated HBDI) is discussed. We specifically address the consequences of the lowest vibrational levels in S being located behind a potential-energy barrier that inhibits internal conversion to the S electronic ground state. Action spectroscopy based on consecutive absorption of two photons together with internal conversion will as a consequence reveal an apparent band origin that is significantly blue-shifted.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bochenkov V E, Sopova N S, Shakhov A M, Astafiev A A, Bochenkova A V
Protein Mobility Measurements through Oxidative Green-to-Red Photoconversion of EGFP Journal Article
In: The Journal of Physical Chemistry B, vol. 126, iss. 23, pp. 4184–4188, 2022.
@article{doi:10.1021/acs.jpcb.2c00643,
title = {Protein Mobility Measurements through Oxidative Green-to-Red Photoconversion of EGFP},
author = {Vladimir E. Bochenkov and Nina S. Sopova and Aleksander M. Shakhov and Artyom A. Astafiev and Anastasia V. Bochenkova},
url = {https://doi.org/10.1021/acs.jpcb.2c00643},
doi = {10.1021/acs.jpcb.2c00643},
year = {2022},
date = {2022-06-03},
urldate = {2022-06-03},
journal = {The Journal of Physical Chemistry B},
volume = {126},
issue = {23},
pages = {4184–4188},
abstract = {Protein dynamics plays a key role in live cell functioning, stimulating the development of new experimental techniques for studying protein transport phenomena. Here, we introduce a relaxation method that is based on the rapid formation of a nonequilibrium concentration profile of the enhanced green fluorescent protein (EGFP) across a sample by its oxidative green-to-red photoconversion. Following the blue-light irradiation of a part of a sample containing EGFP and an oxidant, the diffusion-controlled response of a system is monitored. Changes in the concentration of the initial green-emitting and oxidized red-emitting forms are simultaneously tracked by fluorescence lifetime measurements using the time-correlated single photon counting. We show that the diffusion coefficient of EGFP in water, determined by this method, is in good agreement with previously published data. This approach opens a way for the studies of intracellular viscosity changes combined with sensing of elevated levels of reactive oxygen species.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Rasmussen A P, Teiwes R, Farkhutdinova D A, Bochenkova A V, Andersen L H
On the temperature of large biomolecules in ion-storage rings Journal Article
In: The European Physical Journal D, vol. 76, no. 5, pp. 76, 2022.
@article{Rasmussen2022,
title = {On the temperature of large biomolecules in ion-storage rings},
author = {Anne P. Rasmussen and Ricky Teiwes and Dilara A. Farkhutdinova and Anastasia V. Bochenkova and Lars H. Andersen},
url = {https://link.springer.com/article/10.1140/epjd/s10053-022-00400-y https://link.springer.com/10.1140/epjd/s10053-022-00400-y},
doi = {10.1140/epjd/s10053-022-00400-y},
year = {2022},
date = {2022-05-01},
journal = {The European Physical Journal D},
volume = {76},
number = {5},
pages = {76},
publisher = {Springer},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gruber E, Kabylda A M, Nielsen M B, Rasmussen A P, Teiwes R, Kusochek P A, Bochenkova A V, Andersen L H
Light Driven Ultrafast Bioinspired Molecular Motors: Steering and Accelerating Photoisomerization Dynamics of Retinal Journal Article
In: Journal of the American Chemical Society, vol. 144, no. 1, pp. 69–73, 2022.
@article{Gruber2021,
title = {Light Driven Ultrafast Bioinspired Molecular Motors: Steering and Accelerating Photoisomerization Dynamics of Retinal},
author = {E. Gruber and A. M. Kabylda and M. B. Nielsen and A. P. Rasmussen and R. Teiwes and P. A. Kusochek and A. V. Bochenkova and L. H. Andersen},
url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85122207922&doi=10.1021%2fjacs.1c10752&partnerID=40&md5=3a578161de96a630322dcf7146d53bbf},
doi = {10.1021/jacs.1c10752},
year = {2022},
date = {2022-01-01},
urldate = {2021-01-01},
journal = {Journal of the American Chemical Society},
volume = {144},
number = {1},
pages = {69–73},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Tau O, Henley A, Boichenko A N, Kleshchina N N, Riley R, Wang B, Winning D, Lewin R, Parkin I P, Ward J M, Hailes H C, Bochenkova A V, Fielding H H
Liquid-microjet photoelectron spectroscopy of the green fluorescent protein chromophore Journal Article
In: Nature communications, vol. 13, no. 1, pp. 507, 2022, ISSN: 2041-1723.
@article{fielding2022liquid-microjet429253392,
title = {Liquid-microjet photoelectron spectroscopy of the green fluorescent protein chromophore},
author = {Omri Tau and Alice Henley and Anton N. Boichenko and Nadezhda N. Kleshchina and River Riley and Bingxing Wang and Danielle Winning and Ross Lewin and Ivan P. Parkin and John M. Ward and Helen C. Hailes and Anastasia V. Bochenkova and Helen H. Fielding},
doi = {10.1038/s41467-022-28155-5},
issn = {2041-1723},
year = {2022},
date = {2022-01-01},
journal = {Nature communications},
volume = {13},
number = {1},
pages = {507},
publisher = {United Kingdom},
address = {United Kingdom},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Finenko A A, Bézard B, Gordon I E, Chistikov D N, Lokshtanov S E, Petrov S V, Vigasin A A
Trajectory-based Simulation of Far-infrared Collision-induced Absorption Profiles of CH4–N2 for Modeling Titan’s Atmosphere Journal Article
In: The Astrophysical Journal Supplement Series, vol. 258, no. 2, pp. 33, 2022.
@article{Finenko_2022,
title = {Trajectory-based Simulation of Far-infrared Collision-induced Absorption Profiles of CH4–N2 for Modeling Titan's Atmosphere},
author = {Artem A. Finenko and Bruno Bézard and Iouli E. Gordon and Daniil N. Chistikov and Sergei E. Lokshtanov and Sergey V. Petrov and Andrey A. Vigasin},
url = {https://doi.org/10.3847/1538-4365/ac36d3},
doi = {10.3847/1538-4365/ac36d3},
year = {2022},
date = {2022-01-01},
journal = {The Astrophysical Journal Supplement Series},
volume = {258},
number = {2},
pages = {33},
publisher = {American Astronomical Society},
abstract = {We report the results of the trajectory-based simulation of far-infrared collision-induced absorption (CIA) due to CH4–N2 pairs at temperatures between 70 and 400 K. Our analysis utilizes recently calculated high-level potential energy and induced dipole surfaces. Treating collision partners as rigid rotors, the time evolution of interaction-induced dipole is accumulated over a vast ensemble of classical trajectories and subsequently transformed into a CIA spectrum via Fourier transform. In our calculations, both bound and unbound states are properly accounted for, and the rigorous theory of lower-order spectral moments is addressed to check the accuracy of simulated profiles. Classically derived trajectory-based profiles are subject to two approximate desymmetrization procedures so that resulting profiles conform to the quantum principle of detailed balance. The simulated profiles are compared to laboratory measurements and employed for modeling Titan’s spectra in the 50–500 cm−1 range. Based on the desymmetrized simulated profiles, a new semiempirical model for CH4–N2 CIA is proposed for modeling Titan’s infrared spectra. Synthetic spectra derived using this model yield an excellent agreement with the data recorded by the Composite Infrared Spectrometer aboard the Cassini spacecraft at low and high emission angles.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sokolov A I, Sycheva M A, Farkhutdinova D A, Myasnyanko I N, Mikhaylov A A, Baleeva N S, Bochenkova A V, Baranov M S
Fluorescent 2-Hydroxy-3-(pyridin-2-yl)-4H-quinolizin-4-ones through Dimerization of Pyridineacetic Acids Journal Article
In: European Journal of Organic Chemistry, vol. 2022, no. 30, pp. e202200680, 2022.
@article{https://doi.org/10.1002/ejoc.202200680,
title = {Fluorescent 2-Hydroxy-3-(pyridin-2-yl)-4H-quinolizin-4-ones through Dimerization of Pyridineacetic Acids},
author = {Anatolii I. Sokolov and Maria A. Sycheva and Dilara A. Farkhutdinova and Ivan N. Myasnyanko and Andrey A. Mikhaylov and Nadezhda S. Baleeva and Anastasia V. Bochenkova and Mikhail S. Baranov},
url = {https://chemistry-europe.onlinelibrary.wiley.com/doi/abs/10.1002/ejoc.202200680},
doi = {https://doi.org/10.1002/ejoc.202200680},
year = {2022},
date = {2022-01-01},
journal = {European Journal of Organic Chemistry},
volume = {2022},
number = {30},
pages = {e202200680},
abstract = {Abstract Pyridineacetic acids undergo dimerization under action of the activating agents, giving rise to 2-hydroxy-3-(pyridin-2-yl)-4H-quinolizin-4-ones. The introduction of a difluoroboryl bridge into such derivatives leads to novel highly fluorescent compounds.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2021
Lambo R, Xu C -Y, Pratt S T, Xu H, Zappala J C, Bailey K G, Lu Z -T, Mueller P, O’Connor T P, Kamorzin B B, Bezrukov D S, Xie Y -Q, Buchachenko A A, Singh J T
High-resolution spectroscopy of neutral Yb atoms in a solid Ne matrix Journal Article
In: Phys. Rev. A, vol. 104, iss. 6, pp. 062809, 2021.
@article{PhysRevA.104.062809,
title = {High-resolution spectroscopy of neutral Yb atoms in a solid Ne matrix},
author = {R. Lambo and C. -Y. Xu and S. T. Pratt and H. Xu and J. C. Zappala and K. G. Bailey and Z. -T. Lu and P. Mueller and T. P. O'Connor and B. B. Kamorzin and D. S. Bezrukov and Y. -Q. Xie and A. A. Buchachenko and J. T. Singh},
url = {https://link.aps.org/doi/10.1103/PhysRevA.104.062809},
doi = {10.1103/PhysRevA.104.062809},
year = {2021},
date = {2021-12-01},
journal = {Phys. Rev. A},
volume = {104},
issue = {6},
pages = {062809},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sinenko G D, Farkhutdinova D A, Myasnyanko I N, Baleeva N S, Baranov M S, Bochenkova A V
Designing red-shifted molecular emitters based on the annulated locked GFPchromophore derivatives Journal Article
In: International Journal of Molecular Sciences, vol. 22, no. 24, pp. 13645, 2021.
@article{Sinenko2021,
title = {Designing red-shifted molecular emitters based on the annulated locked GFPchromophore derivatives},
author = {G. D. Sinenko and D. A. Farkhutdinova and I. N. Myasnyanko and N. S. Baleeva and M. S. Baranov and A. V. Bochenkova},
url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85121343375&doi=10.3390%2fijms222413645&partnerID=40&md5=3538db985b54d3e96fac059fa8c047d4},
doi = {10.3390/ijms222413645},
year = {2021},
date = {2021-01-01},
urldate = {2021-01-01},
journal = {International Journal of Molecular Sciences},
volume = {22},
number = {24},
pages = {13645},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kusochek P A, Logvinov V V, Bochenkova A V
Role of the Protein Environment in Photoisomerization of Type I and Type II Rhodopsins: a Theoretical Perspective Journal Article
In: Moscow University Chemistry Bulletin, vol. 76, no. 6, pp. 407-416, 2021.
@article{Kusochek2021407,
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Woodhouse J L, Henley A, Lewin R, Ward J M, Hailes H C, Bochenkova A V, Fielding H H
A photoelectron imaging study of the deprotonated GFP chromophore anion and RNA fluorescent tags Journal Article
In: Physical Chemistry Chemical Physics, vol. 23, no. 35, pp. 19911-19922, 2021.
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title = {A photoelectron imaging study of the deprotonated GFP chromophore anion and RNA fluorescent tags},
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Langeland J, Persen N W, Gruber E, Kiefer H V, Kabylda A M, Bochenkova A V, Andersen L H
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Kusochek P A, Scherbinin A V, Bochenkova A V
Insights into the Early-Time Excited-State Dynamics of Structurally Inhomogeneous Rhodopsin KR2 Journal Article
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Ivanenkov Y A, Filyaeva K Y, Matniyazov R T, Baymiev A K, Vladimirova A A, Yamidanov R S, Mavzyutov A R, Zileeva Z R, Zainullina L F, Vakhitova J V, Marina V I, Terentiev V A, Osterman I A, Kartsev V G, Bezrukov D S, Dontsova O A
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title = {Antibacterial activity of noscapine analogs},
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Ozerov G K, Bezrukov D S, Buchachenko A A
Generic accommodations of an atom in the Lennard-Jones fcc and hcp rare-gas solids: A computational study Journal Article
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Leibin I V, Kalinina I S, Bezrukov D S, Buchachenko A A
Modeling of the thermal migration mechanisms of atomic oxygen in Ar, Kr, and Xe crystals Journal Article
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title = {Modeling of the thermal migration mechanisms of atomic oxygen in Ar, Kr, and Xe crystals},
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Ozerov G K, Bezrukov D S, Buchachenko A A
Molecular dynamics simulations of the Ba+ ion mobility in liquid xenon Journal Article
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Pokhilko P, Bezrukov D S, Krylov A I
Is Solid Copper Oxalate a Spin Chain or a Mixture of Entangled Spin Pairs? Journal Article
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Leibin I V, Bezrukov D S, Buchachenko A A
Trapping and migration of P-state atoms in rare gas solids: effect of angular momentum anisotropy for model O(3P) and C(3P) atoms Journal Article
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Odintsova T A, Serov E A, Balashov A A, Koshelev M A, Koroleva A O, Simonova A A, Tretyakov M Y, Filippov N N, Chistikov D N, Finenko A A, Lokshtanov S E, Petrov S V, Vigasin A A
CO2–CO2 and CO2–Ar continua at millimeter wavelengths Journal Article
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title = {CO2–CO2 and CO2–Ar continua at millimeter wavelengths},
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Chistikov D N, Finenko A A, Kalugina Y N, Lokshtanov S E, Petrov S V, Vigasin A A
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Finenko A A, Chistikov D N, Kalugina Y N, Conway E K, Gordon I E
Fitting potential energy and induced dipole surfaces of the van der Waals complex CH4-N2 using non-product quadrature grids Journal Article
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2020
Bochenkov V E, Lobanova E M, Shakhov A M, Astafiev A A, Bogdanov A M, Timoshenko V A, Bochenkova A V
Plasmon-enhanced fluorescence of EGFP on short-range ordered ag nanohole arrays Journal Article
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title = {Plasmon-enhanced fluorescence of EGFP on short-range ordered ag nanohole arrays},
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Gorbachev D A, Petrusevich E F, Kabylda A M, Maksimov E G, Lukyanov K A, Bogdanov A M, Baranov M S, Bochenkova A V, Mishin A S
A General Mechanism of Green-to-Red Photoconversions of GFP Journal Article
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Anstöter C S, Mensa-Bonsu G, Nag P, Ranković M, P. R K T, Boichenko A N, Bochenkova A V, Fedor J, Verlet J R R
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Veselov M S, Ivanenkov Y A, Yamidanov R S, Osterman I A, Sergiev P V, Aladinskiy V A, Aladinskaya A V, Terentiev V A, Ayginin A A, Skvortsov D A, Komarova K S, Chemeris A V, Baimiev A K, Sofronova A A, Machulkin A E, Petrov R A, Maklakova S Y, Bezrukov D S, Filkov G I, Zainullina L F, Maximova M A, Zileeva Z R, Kartsev V G, Vakhitova Y V, Dontsova O A
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Tetrahydrocarbazoles as Novel Class of DNA Biosynthesis Inhibitors in Bacteria Journal Article
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Tarakanova A S, Buchachenko A A, Bezrukov D S
Trapping sites of Li atom in the rare gascrystals Ar, Kr, and Xe: Analysis of stabilityand manifestation in the EPR spectra Journal Article
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Serov E A, Balashov A A, Tretyakov M Y, Odintsova T A, Koshelev M A, Chistikov D N, Finenko A A, Lokshtanov S E, Petrov S V, Vigasin A A
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Was Sommerfeld wrong? (To the history of the appearance of spin in relativistic wave equations) Journal Article
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Chistikov D N, Finenko A A, Kazakov K V
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Seleznev A O, Khrustov V F
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Xuanhao C, Krasnoshchekov S V, Pupyshev V I, Millionshchikov D V
Normal ordering of the su(1, 1) ladder operators for the quasi-number states of the Morse oscillator Journal Article
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title = {Normal ordering of the su(1, 1) ladder operators for the quasi-number states of the Morse oscillator},
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Dipole polarizability for confined two-electron atomic systems: simple approximations Journal Article
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