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TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)

Coenzyme B(12) (AdoCbl) is one of the most biologically active forms of vitamin B(12), and continues to be a topic of active research interest. The mechanism of Co-C bond cleavage in AdoCbl, and the corresponding enzymatic reactions are however, not well understood at the molecular level. In this wo...

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Autores principales: Liu, Hui, Kornobis, Karina, Lodowski, Piotr, Jaworska, Maria, Kozlowski, Pawel M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3982521/
https://www.ncbi.nlm.nih.gov/pubmed/24790969
http://dx.doi.org/10.3389/fchem.2013.00041
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author Liu, Hui
Kornobis, Karina
Lodowski, Piotr
Jaworska, Maria
Kozlowski, Pawel M.
author_facet Liu, Hui
Kornobis, Karina
Lodowski, Piotr
Jaworska, Maria
Kozlowski, Pawel M.
author_sort Liu, Hui
collection PubMed
description Coenzyme B(12) (AdoCbl) is one of the most biologically active forms of vitamin B(12), and continues to be a topic of active research interest. The mechanism of Co-C bond cleavage in AdoCbl, and the corresponding enzymatic reactions are however, not well understood at the molecular level. In this work, time-dependent density functional theory (TD-DFT) has been applied to investigate the photodissociation of coenzyme B(12). To reduce computational cost, while retaining the major spectroscopic features of AdoCbl, a truncated model based on ribosylcobalamin (RibCbl) was used to simulate Co-C photodissociation. Equilibrium geometries of RibCbl were obtained by optimization at the DFT/BP86/TZVP level of theory, and low-lying excited states were calculated by TD-DFT using the same functional and basis set. The calculated singlet states, and absorption spectra were simulated in both the gas phase, and water, using the polarizable continuum model (PCM). Both spectra were in reasonable agreement with experimental data, and potential energy curves based on vertical excitations were plotted to explore the nature of Co-C bond dissociation. It was found that a repulsive (3)(σ(Co−C) → σ(*)(Co−C)) triplet state became dissociative at large Co-C bond distance, similar to a previous observation for methylcobalamin (MeCbl). Furthermore, potential energy surfaces (PESs) obtained as a function of both Co-C(Rib) and Co-N(Im) distances, identify the S(1) state as a key intermediate generated during photoexcitation of RibCbl, attributed to a mixture of a metal-to-ligand charge transfer (MLCT) and a σ bonding-ligand charge transfer (SBLCT) states.
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spelling pubmed-39825212014-04-30 TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12) Liu, Hui Kornobis, Karina Lodowski, Piotr Jaworska, Maria Kozlowski, Pawel M. Front Chem Chemistry Coenzyme B(12) (AdoCbl) is one of the most biologically active forms of vitamin B(12), and continues to be a topic of active research interest. The mechanism of Co-C bond cleavage in AdoCbl, and the corresponding enzymatic reactions are however, not well understood at the molecular level. In this work, time-dependent density functional theory (TD-DFT) has been applied to investigate the photodissociation of coenzyme B(12). To reduce computational cost, while retaining the major spectroscopic features of AdoCbl, a truncated model based on ribosylcobalamin (RibCbl) was used to simulate Co-C photodissociation. Equilibrium geometries of RibCbl were obtained by optimization at the DFT/BP86/TZVP level of theory, and low-lying excited states were calculated by TD-DFT using the same functional and basis set. The calculated singlet states, and absorption spectra were simulated in both the gas phase, and water, using the polarizable continuum model (PCM). Both spectra were in reasonable agreement with experimental data, and potential energy curves based on vertical excitations were plotted to explore the nature of Co-C bond dissociation. It was found that a repulsive (3)(σ(Co−C) → σ(*)(Co−C)) triplet state became dissociative at large Co-C bond distance, similar to a previous observation for methylcobalamin (MeCbl). Furthermore, potential energy surfaces (PESs) obtained as a function of both Co-C(Rib) and Co-N(Im) distances, identify the S(1) state as a key intermediate generated during photoexcitation of RibCbl, attributed to a mixture of a metal-to-ligand charge transfer (MLCT) and a σ bonding-ligand charge transfer (SBLCT) states. Frontiers Media S.A. 2014-02-05 /pmc/articles/PMC3982521/ /pubmed/24790969 http://dx.doi.org/10.3389/fchem.2013.00041 Text en Copyright © 2014 Liu, Kornobis, Lodowski, Jaworska and Kozlowski. http://creativecommons.org/licenses/by/3.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Chemistry
Liu, Hui
Kornobis, Karina
Lodowski, Piotr
Jaworska, Maria
Kozlowski, Pawel M.
TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title_full TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title_fullStr TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title_full_unstemmed TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title_short TD-DFT insight into photodissociation of the Co-C bond in coenzyme B(12)
title_sort td-dft insight into photodissociation of the co-c bond in coenzyme b(12)
topic Chemistry
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3982521/
https://www.ncbi.nlm.nih.gov/pubmed/24790969
http://dx.doi.org/10.3389/fchem.2013.00041
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