99 results on '"Tzeli D"'
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2. Magnetism in the interface of Co/CoO
- Author
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Tzeli D., Morphis A., Blackman J. A., and Trohidou K. N.
- Subjects
Physics ,QC1-999 - Abstract
We have employed first-principles calculations to study the magnetic properties of the binary system Co-O. Two types of calculations were carried out: i. Co-O clusters of 13, 14 and 19 atoms and ii. Co/CoO bilayer. The Co/CoO bilayer forms a ferromagnetic-antiferromagnetic interface. The geometrical structures of the clusters and of the Co/CoO bilayer were optimized via ab initio collinear and non-collinear calculations. The spin-orbit interaction was included, too. We found that the addition of the O atom in the Co cluster leads to an increase of the μCo values of O’s adjacent Co atoms. At the bilayer, the Co atoms in the interface have enhanced magnetic moment compared to the corresponding values of the bulk Co in agreement with the experiment.
- Published
- 2014
- Full Text
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3. Molybdenum-Sulfur Bond: Electronic Structure of Low-Lying States of MoS
- Author
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Tzeli, D. Karapetsas, I. Merriles, D.M. Ewigleben, J.C. Morse, M.D.
- Abstract
The molybdenum-sulfur bond plays an important role in many processes such as nitrogen-fixation, and it is found as a building block in layered materials such as MoS2, known for its various shapes and morphologies. Here, we present an accurate theoretical and experimental investigation of the chemical bonding and the electronic structure of 20 low-lying states of the MoS molecule. Multireference and coupled cluster methodologies, namely, MRCISD, MRCISD + Q, RCCSD(T), and RCCSD[T], were employed in conjunction with basis sets up to aug-cc-pwCV5Z-PP/aug-cc-pwCV5Z for the study of these states. We note the significance of including the inner 4s24p6electrons of Mo and 2s22p6of S in the correlated space to obtain accurate results. Experimentally, the predissociation threshold of MoS was measured using resonant two-photon ionization spectroscopy, allowing for a precise measurement of the bond dissociation energy. Our extrapolated computational D0value for the ground state is 3.936 eV, in excellent agreement with our experimental measurement of 3.932 ± 0.004 eV. The largest calculated adiabatic D0(5.74 eV) and the largest dipole moment (6.50 D) were found for the 5ς+state, where a triple bond is formed. Finally, the connection of the chemical bonding of the isolated MoS species to the relevant solid, MoS2, is emphasized. The low-lying septet states of the diatomic molecule are involved in the material as a building block, explaining the stability and the variety of the shapes and morphologies of the material. © 2022 American Chemical Society. All rights reserved.
- Published
- 2022
4. Review on the QM/MM Methodologies and Their Application to Metalloproteins
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Tzeliou, C.E. Mermigki, M.A. Tzeli, D.
- Abstract
The multiscaling quantum mechanics/molecular mechanics (QM/MM) approach was introduced in 1976, while the extensive acceptance of this methodology started in the 1990s. The combination of QM/MM approach with molecular dynamics (MD) simulation, otherwise known as the QM/MM/MD approach, is a powerful and promising tool for the investigation of chemical reactions’ mechanism of complex molecular systems, drug delivery, properties of molecular devices, organic electronics, etc. In the present review, the main methodologies in the multiscaling approaches, i.e., density functional theory (DFT), semiempirical methodologies (SE), MD simulations, MM, and their new advances are discussed in short. Then, a review on calculations and reactions on metalloproteins is presented, where particular attention is given to nitrogenase that catalyzes the conversion of atmospheric nitrogen molecules N₂ into NH₃ through the process known as nitrogen fixation and the FeMo-cofactor. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.
- Published
- 2022
5. Article Conformational Properties of New Thiosemicarbazone and Thiocarbohydrazone Derivatives and Their Possible Targets
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Georgiou, N. Katsogiannou, A. Skourtis, D. Iatrou, H. Tzeli, D. Vassiliou, S. Javornik, U. Plavec, J. Mavromoustakos, T.
- Abstract
The structure assignment and conformational analysis of thiosemicarbazone KKI15 and thiocarbohydrazone KKI18 were performed through homonuclear and heteronuclear 2D Nuclear Magnetic Resonance (NMR) spectroscopy (2D-COSY, 2D-NOESY, 2D-HSQC, and 2D-HMBC) and quantum mechanics (QM) calculations using Functional Density Theory (DFT). After the structure identification of the compounds, various conformations of the two compounds were calculated using DFT. The two molecules showed the most energy-favorable values when their two double bonds adopted the E configuration. These configurations were compatible with the spatial correlations observed in the 2D-NOESY spectrum. In addition, due to the various isomers that occurred, the energy of the transition states from one isomer to another was calculated. Finally, molecular binding experiments were performed to detect potential targets for KKI15 and KKI18 derived from Swis-sAdme. In silico molecular binding experiments showed favorable binding energy values for all four enzymes studied. The strongest binding energy was observed in the enzyme butyrylcholinesterase. ADMET calculations using the preADMET and pKCSm software showed that the two molecules appear as possible drug leads. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.
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- 2022
6. Losartan Interactions with 2-Hydroxypropyl-β-CD
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Palli, V. Leonis, G. Zoupanou, N. Georgiou, N. Chountoulesi, M. Naziris, N. Tzeli, D. Demetzos, C. Valsami, G. Marousis, K.D. Spyroulias, G.A. Mavromoustakos, T.
- Abstract
Losartan potassium salt (LSR) is a well-known antihypertensive drug with proven beneficial effects on human health. Its formulation with the non-toxic 2-hydroxypropyl-β-cyclodextrin (2-HP-β-CD) could improve its pharmacological profile. Thus, its molecular interactions are studied using a combination of Differential Scanning Calorimetry (DSC), Nuclear Magnetic Resonance (NMR) and Molecular Dynamics (MD). First, its complexation is shown through Differential Scanning Calorimetry as lyophilization provided distinct thermal properties in comparison to the mixture. The complexation is further proved by utilizing the chemical shift changes in the complexation and T1 values. Furthermore, the reversible favorable complexation was shown by MD calculations. Such physical chemical properties provide evidence that this formulation must be further explored through biological experiments. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.
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- 2022
7. 3-Input AND Molecular Logic Gate with Enhanced Fluorescence Output: The Key Atom for the Accurate Prediction of the Spectra
- Author
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Tzeliou, C.E. Tzeli, D.
- Abstract
The development of artificial receptors for sensing and recognition of species, as well as for advanced logic functions, is a significant challenge in the field of molecular information technology. Here, we study theoretically, via DFT/TD-DFT calculations, the photophysical properties of a 3-input AND molecular logic gate which presents an enhanced fluorescence spectrum. It was found that the geometry conformation at an N atom of the piperazine group is the key factor for the correct calculation of the absorption spectra of the calculated structures. Its geometry is between tetrahedral and planar, while changes in the corresponding CNCC dihedral angle of about 10 degrees can cause significant shifts of the main peak of the absorption spectra up to 100 nm. Moreover, the unusually enhanced fluorescence of a molecular logic gate (MLG) is explained. Finally, we conclude that molecular systems having N atoms, whose geometry is between planar and tetrahedral, can be ideal molecules as sensors and molecular logic gates. Our calculated absorption and emission spectra are in excellent agreement with available experimental data. © 2022 American Chemical Society.
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- 2022
8. Quantitative Account of the Bonding Properties of a Rubredoxin Model Complex [Fe(SCH3)4]q, q = -2, -1, +2, +3
- Author
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Tzeli, D. Raugei, S. Xantheas, S.S.
- Abstract
Iron-sulfur clusters play important roles in biology as parts of electron-transfer chains and catalytic cofactors. Here, we report a detailed computational analysis of a structural model of the simplest natural iron-sulfur cluster of rubredoxin and its cationic counterparts. Specifically, we investigated adiabatic reduction energies, dissociation energies, and bonding properties of the low-lying electronic states of the complexes [Fe(SCH3)4]2-/1-/2+/3+ using multireference (CASSCF, MRCISD), and coupled cluster [CCSD(T)] methodologies. We show that the nature of the Fe-S chemical bond and the magnitude of the ionization potentials in the anionic and cationic [Fe(SCH3)4] complexes offer a physical rationale for the relative stabilization, structure, and speciation of these complexes. Anionic and cationic complexes present different types of chemical bonds: prevalently ionic in [Fe(SCH3)4]2-/1- complexes and covalent in [Fe(SCH3)4]2+/3+ complexes. The ionic bonds result in an energy gain for the transition [Fe(SCH3)4]2- → [Fe(SCH3)4]- (i.e., FeII → FeIII) of 1.5 eV, while the covalent bonds result in an energy loss for the transition [Fe(SCH3)4]2+ → [Fe(SCH3)4]3+ of 16.6 eV, almost half of the ionization potential of Fe2+. The ionic versus covalent bond character influences the Fe-S bond strength and length, that is, ionic Fe-S bonds are longer than covalent ones by about 0.2 Å (for FeII) and 0.04 Å (for FeII). Finally, the average Fe-S heterolytic bond strength is 6.7 eV (FeII) and 14.6 eV (FeIII) at the RCCSD(T) level of theory. © 2021 American Chemical Society. All rights reserved.
- Published
- 2021
9. N,N- and N,O-6-membered Ring peri-Annelation in Naphthalene. Is it a Heteroring or merely a peri- Heterobridge?
- Author
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Tzeli, D. Tsoungas, P.G.
- Abstract
The effect of peri-fusion on the aromaticity of 6-membered N−, O−, N,N−, N,N,N− and N,O-doped naphthalene derivatives has been studied via NICS-z, -xz, -xy, and -xyz scans employing DFT and MP2 calculations. The relative aromaticity of these structures was found to vary with the type of heteroring and the distance from the plane. Their corresponding ordering depends on the scan approaches. Accordingly, i) along the z axis at the center of the naphthalene B and C constituent rings, it is 1,8>2>7,9≫4>6, 5>3 (the most aromatic members are naphthalene and the N,O-derivative 8), ii) along the x symmetry axis of naphthalene, it is 3>8,7>5>4>9>6>2>1 (the most aromatic one is a N-derivative 3) and iii) along the z axis, on the xy plane, it is 6>1>8>9>2>5>7>3>4 at z=0.8 Å and 1>2>8>9>6>7>5>3>4 at 2.4 Å (the most aromatic ones are the N,N,N-derivative 6 at 0.8 Å and naphthalene at 2.4 Å). Their relative magnetic anisotropy ordering remains virtually unaltered in all different approaches (z-, xz-, xy-, and xyz-scans), as does their aromaticity at z=2.4 Å. The σ component of the total density is dominant close to the plane while the π component picks up in significance with increasing distance from the plane. The peri-fused ring appears to be a heteroring not just a heterobridge. © 2021 Wiley-VCH GmbH
- Published
- 2021
10. The role of electric field, peripheral chains, and magnetic effects on significant1H upfield shifts of the encapsulated molecules in chalcogen-bonded capsules
- Author
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Tzeli, D. Petsalakis, I.D. Theodorakopoulos, G. Rahman, F.-U. Yu, Y. Rebek, J.
- Abstract
The chalcogen-bonded homo-cavitand and hetero-cavitandAY+AY′capsules (Y, Y′ = Se, Te), as well as their encapsulated complexes with one or two guest molecules have been studied theoreticallyviadensity functional theory (DFT), while the1H NMR spectra of the homo-cavitand encapsulated complexes (inASe+ASe) have been measured experimentally. There is excellent agreement between theoretical and experimental spectra. In all cases, we found significant1H upfield shifts which are more intense in theASe+ASecage compared to theATe+ATeandASe+ATecages. The non-uniform electron distribution which gives rise to an inherent electric field and a non-zero electric dipole moment of the encapsulated complexes, the induced electric field effects, the magnetic anisotropy which is enhanced due to the polarizability of chalcogen atoms, and the peripheral chains, which are responsible for the solubility of the cages, increase the upfield shifts of1H of the encapsulated molecules; the peripheral chains lead to an increase of the upfield shifts by up to 1.8 ppm for H of the rim and up to 1.2 ppm for the terminal H in the interior of the cage. Hence, substantial1H upfield chemical shifts of the guests in these capsules are consequences of (i) the enhanced aromaticity of the walls of the capsules due to the polarizability of chalcogen atoms, (ii) the induced and inherent electric field effects, and (iii) the peripheral chains. © the Owner Societies 2021.
- Published
- 2021
11. Aromaticity and Chemical Bonding of Chalcogen-Bonded Capsules Featuring Enhanced Magnetic Anisotropy
- Author
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Tzeli, D. Petsalakis, I.D. Theodorakopoulos, G. Rahman, F.-U. Ballester, P. Rebek, J., Jr. Yu, Y.
- Abstract
We present a theoretical study of chalcogen bonded container capsules (AX+AX) where X=O, S, Se, and Te, and their encapsulation complexes with n-C9H20 (n-C9H20@AX+AX). Both Se and Te encapsulation complexes have significant experimental and computed binding energies, analogous to the hydrogen bonded counterparts, while the S and O capsules and their encapsulation complexes show only weak binding energies, which are attributed to different types of bonding: chalcogen S⋅⋅⋅N bonds for S-capsules and π–π stacking and weak hydrogen bonds for the O case. All AX+AX and C9H20@AX+AX present unusually high magnetic anisotropies in their interiors. The 1H NMR spectra of the encapsulation complexes display the proton signals of the encapsulated n-nonane highly upfield shifted, in agreement with the available experimental data for the Se capsule. We found that different factors contribute to the observed magnetic anisotropy of the capsule's interior: for the Te capsule the most important factor is Te's large polarizability; for the O analogue the inductive effects produced by the electronegative nature of the O and N heteroatoms; and for the S and Se capsules, the polarizability of the heteroatoms combines with electric field effects. © 2020 Wiley-VCH GmbH
- Published
- 2020
12. Reactivity and mechanism of photo-and electrocatalytic hydrogen evolution by a diimine copper(I) complex
- Author
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Drosou, M. Kamatsos, F. Ioannidis, G. Zarkadoulas, A. Mitsopoulou, C.A. Papatriantafyllopoulou, C. Tzeli, D.
- Abstract
The tetrahedral copper(I) diimine complex [Cu(pq)2]BF4 displays high photocatalytic activity for the H2 evolution reaction with a turnover number of 3564, thus representing the first type of a Cu(I) quinoxaline complex capable of catalyzing proton reduction. Electrochemical experiments indicate that molecular mechanisms prevail and DFT calculations provide in-depth insight into the catalytic pathway, suggesting that the coordinating nitrogens play crucial roles in proton exchange and hydrogen formation. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
- Published
- 2020
13. Quadruple Bonding in the Ground and Low-Lying Excited States of the Diatomic Molecules TcN, RuC, RhB, and PdBe
- Author
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Tzeli, D. Karapetsas, I.
- Abstract
Multiple bonds between atoms are one of the most fundamental aspects of chemistry. Double and triple bonds are quite common, while quadruple bonds are a true oddity and very rare for the main group elements. Identifying molecules containing quadruple bonds is very important and, even more so, determining the necessary requirements for the existence of such bonds. Here we present high-level theoretical calculations on the isoelectronic MX molecules, i.e., TcN, RuC, RhB, and PdBe, showing that such a quadruple bond with main group elements is not that uncommon. We found that quadruple bonds are formed in their ground states X3Δ(TcN) and χ1ς+ (RuC, RhB, and PdBe) and in the two lowest excited states of TcN (1ς+, 1Δ), RuC (1,3Δ), and RhB (1,3Δ). The quadruple bonds consist of two πand two σ bonds: (4dxz-2px)2, (4dyz-2py)2, (4dz2-2pz)2, and 5s0 → 2s2 (1ς+) or 5pz0→2s2 (1,3Δ). Bond lengths, dissociation energies, dipole moments, spectroscopic parameters, and relative energy ordering of the states were calculated via multireference and coupled cluster methodology using the aug-cc-pV5ZX(-PP)M basis sets. We study how the atomic states involved and how the gradual transition from covalent to dative bond, from TcN to PdBe, influence all of the calculated data, such as bond dissociation energies, bond lengths, and relative energy ordering of the states. Finally, we report the requirements for the occurrence of such bonds in molecular systems. All Be, B, C, and N atoms combining with the appropriate second-row transition metal can form quadruple bonds, while they cannot form such bonds with the first-row transition metals. © 2020 American Chemical Society.
- Published
- 2020
14. Accurate ab initio calculations of the ground states of FeC, FeC +, and FeC
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Tzeli, D. Mavridis, A.
- Abstract
For the ground states of the diatomic carbide FeC (X 3Δ) and its ions, FeC+ (X 2Δ) and FeC- (X 2Δ), we report on accurate multireference variational ab initio results employing augmented correlation consistent basis sets of quintuple cardinality. The dissociation energies and bond lengths are found to be D00 =87±1, 95.2, and 84±1 kcal/mol at re =1.581, 1.556, and 1.660 Å for FeC, FeC+, and FeC-, respectively. All our final numbers are in agreement with the available experimental data. © 2010 American Institute of Physics.
- Published
- 2010
15. First principles study of the electronic structure and bonding of Mn 2
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Tzeli, D. Miranda, U. Kaplan, I.G. Mavridis, A.
- Abstract
We have examined the electronic structure and bonding of the Mn2 molecule through multireference variational calculations coupled with augmented quadruple correlation consistent basis sets. The Mn atom has a 6S (4s23d5) ground state with its first excited state, 6D (4 s1 3 6D), located 2.145 eV higher. For all six molecular states 1∑g+, 3 u+, 5∑g+, 7∑u +, 9∑g+, and 11IIu+ (1) correlating to Mn (6S) +Mn (6S), and for six undecets, i.e., 11Πu, 11∑g+, 11Δg, 11Δu, 11IIu+ (2), and 11Πg with end fragments Mn (6S) +Mn (6D), complete potential energy curves have been constructed for the first time. We prove that the bonding in Mn2 dimer is of van der Waals type. The interaction of two Mn 6S atoms is hardly influenced by the total spin, as a result the six states, singlet (1∑ g+) to undecet (11IIu+ (1)), are in essence degenerate packed within an energy interval of about 70 cm-1. Their ordering follows the spin multiplicity, the ground state being a singlet, X 1∑g+, with binding energy De (D0) ≈600 (550) cm-1 at re ≈3.60 Å. The six undecet states related to the Mn (6S) +Mn (6D) manifold, are chemically bound with binding energies ranging from 3 (11Π g) to 25 (11Πu) kcal/mol and bond distances about 1 Å shorter than the states of the lower manifold, Mn ( 6S) +Mn (6S). The lowest of the undecets is of Πu symmetry located 30 kcal/mol above the X 1∑g + state. © 2008 American Institute of Physics.
- Published
- 2008
16. Theoretical investigation of the ground and low-lying excited states of nickel carbide, NiC
- Author
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Tzeli, D. Mavridis, A.
- Abstract
The electronic structure and bonding of 19 states of the diatomic nickel carbide (NiC) has been studied by multireference methods. Potential energy curves have been constructed for all states, whereas for the three lowest states of symmetries X +1, a Π3, and A Π1 well separated from the rest of the states, special attention was paid through the use of very large basis sets and the calculation of core-valence correlation and scalar relativistic effects. The recommended binding energies for these states are 91, 67, and 54 kcalmol with respect to the ground state atoms. Our results in general can be considered in fair agreement with the limited experimental findings. © 2007 American Institute of Physics.
- Published
- 2007
17. Electronic structure of cobalt carbide, CoC
- Author
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Tzeli, D. Mavridis, A.
- Subjects
Physics::Chemical Physics - Abstract
The ground and 18 low lying excited states of the diatomic molecule cobalt carbide, CoC, have been examined by multireference variational methods (MRCI) combined with quantitative basis sets. All calculated states are bound and correlate adiabatically to the ground-state atoms, Co(a4F) + C( 3P). We report complete potential energy curves, equilibrium bond distances, dissociation energies (De), spectroscopic constants, electric dipole moments and spin-orbit splittings. The bonding character of certain states is also discussed with the help of Mulliken distributions and valence-bond-Lewis diagrams. We are practically certain that the ground state is of 2Σ+ symmetry with a state of 2Δ symmetry lying less than 3 kcal/mol higher, in agreement with the relevant experimental findings. Our best estimate of the X2Σ+ dissociation energy is De(D0) = 83(82) kcal/mol at r e = 1.541 Å, 0.02 Å shorter than the experimental bond length. © 2006 American Chemical Society.
- Published
- 2006
18. First principles investigation of the electronic structure of the iron carbide cation, FeC+
- Author
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Tzeli, D. Mavridis, A.
- Abstract
We have studied 40 states of the diatomic iron carbide cation FeC + by multireference methods coupled with relatively large basis sets. For most of the states, we have constructed complete potential energy curves, reporting dissociation energies, usual spectroscopic parameters, and bonding mechanisms for the lowest of the studied states. The ground state is of 2Δ symmetry, with the first excited state (a 4Σ-) lying 18 kcal/mol higher. The X 2Δ state displays a triple-bond character, with an estimated D0 value of 104 kcal/mol with respect to the adiabatic products or 87 kcal/mol with respect to the ground-state fragments. © 2005 American Chemical Society.
- Published
- 2005
19. CH(X2Π, a4Σ-) ⋯ OH 2 and CH2(X̃3B1, ãA 1) ⋯ OH2 interactions. A first principles investigation
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Tzeli, D. Mavridis, A.
- Abstract
We have investigated the interaction of the methylidene, CH(X 2Π, a4Σ-) and methylene, CH 2(X̃3B1, ã1A1) with H2O, employing the (P)MPn (n = 2, 4) techniques in conjunction with the sequence of correlation consistent basis sets aug-cc-pVxZ, x = 2, 3, and 4. For the CH⋯OH2 system, we have located four minima (m) and three transition states (ts) and for the CH2⋯OH 2, five minima and four transition states. All our results have been corrected for zero-point energy (ZPE) and basis set superposition errors (BSSE), while for the most important m_ structures, we report complete basis set (CBS) interaction limits. We also report fully optimized geometries, harmonic frequencies, dipole moments, Mulliken charges, and potential energy curves. The highest CH(X2Π)⋯OH2 (ml_2Π) and CH2(ã1A 1)⋯OH2 (m1_1A1) interactions are the result of electron transfer from the oxygen atom to the empty p π orbitals of CH(X2Π) and CH2(ã 1A1), respectively (ylide-like structures). At the (P)MP4/AQZ//MP2/ATZ level, including ZPE, BSSE, and CBS extrapolation, we obtain ΔE0(BSSE)+CBS = -9.36 kcal/mol at rC⋯O = 1.752 Å, and -9.73 kcal/mol at rC⋯O = 1.741 Å for the m1_2Π and m1_1A1, respectively. © 2005 Wiley Periodicals, Inc.
- Published
- 2005
20. Ab initio investigation of the electronic and geometric structure of magnesium diboride, MgB2
- Author
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Tzeli, D. Mavridis, A.
- Abstract
Employing multireference variational (MRCI) and coupled cluster (CC) methods combined with quadruple-ζ quality correlation-consistent basis set, we have studied 36 states of the magnesium diboride (MgB2) molecule as well as 17 states of the experimentally unknown diatomic MgB. For all states of MgB2, we report geometries, atomization energies, and dipole moments, while for the first 5 states, potential energy profiles have been also constructed. The ground state is formally of 1A1 V-shaped symmetry with an atomization energy of 108.1(109) kcal/mol at the MRCI(MRCI + Davidson correction) level. The first excited state (3B1) is less than 1 kcal/mol above the X̃1A1 state, with the next state of linear Mg - B - B geometry (b̃3Σ -) located 10 kcal/mol higher. In all states, bent or linear, the bonding is complicated and unconventional because of the extraordinary bonding agility of the boron atom(s). © 2005 American Chemical Society.
- Published
- 2005
21. The dipole moments of the excited states of FeC
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Tzeli, D. Mavridis, A.
- Abstract
With the purpose of comparing expectation dipole moment values 〈μ〉 with finite-field obtained dipole moments μ FF, we recalculated by the finite-field method previously reported 〈μ〉 values of 38 excited states of FeC. In most of the cases μ FF is significantly larger than 〈μ〉.© 2005 American Institute of Physics.
- Published
- 2005
22. On the ground state of titanium phosphide, TiP: A theoretical investigation
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Tzeli, D. Mavridis, A.
- Subjects
Physics::Chemical Physics - Abstract
The ground state symmetry of the titanium phosphide molecule, TiP, was discussed using multireference and coupled cluster methods and very large basis sets was discussed. The ground state of TiP was of 2σ+ symmetry with the first excited state A 2δ no more than 3.5 kcal/mol higher. Coupled cluster singles and doubles with perturbative triples calculations were also performed. Potential energy curves, dissociation energies, bond lengths, dipole moments, and the usual spectroscopic constants were also reported.
- Published
- 2004
23. On the dipole moment of the ground state X3 Δ of iron carbide, FeC
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Tzeli, D. Mavridis, A.
- Abstract
A study was conducted on the calculations of the dipole moment of the X3Δ state of FeC by increasing the basis set size, and using also the finite field method for obtaining the dipole moment (μFF). As a result, a dramatic improvement was observed using the finite field method: the μFF increases by approximately 0.6 D as compared to the value in both MRCI and C-MRCI levels of theory, while it seems to be independent of the basis set size, at least within these particular series of basis sets.
- Published
- 2003
24. First principles examination of the acetylene-water clusters, HCCH-(H2O)x, x = 2, 3, and 4
- Author
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Tzeli, D. Mavridis, A. Xantheas, S.S.
- Abstract
The acetylene-water (A-W) interactions have been investigated by examining the van der Waals clusters AWx, x = 2, 3, and 4, at the second order (MP2) perturbation theory using the correlation-consistent basis sets, aug-cc-pVnZ, n = D (AW2, AW3, and AW4), T (AW2). We located 4 minima (m) and 2 saddle points (sp), 10 m and 3 sp, and 30 m and 3 sp on the potential energy surfaces of the AW2, AW3, and AW4 clusters, respectively. We report the fully optimized geometries and interaction energies ΔEe, including corrections for basis set superposition error, ΔEe(BSSE), as well as zero-point energies, ΔE0(BSSE), for the various stationary points. The global minima of the AW2 and AW3 clusters are cyclic configurations in which the acetylene molecule inserts into the water hydrogen bonding network. The corresponding interaction energies ΔEe(BSSE)[ΔE0(BSSE)] are AW2, - 10.37 [-6.70] kcal/mol (MP2/aug-cc-pVTZ) and AW3, - 17.80 [-11.46] kcal/mol (MP2/aug-cc-pVDZ). The global minimum of AW4 corresponds to a van der Waals complex between a cyclic water tetramer W4 and A with an interaction energy of -28.01 [-18.67] kcal/mol (MP2/aug-cc-pVDZ). The 4 and 10 local minima for the x = 2 and 3 clusters span an energy range of 4.3 and 6.1 kcal/mol above the respective global minima. For AW4, the energy range for the 30 minima is 14.1 kcal/mol; however, the first 28 lie within 8.4 kcal/mol above the global minimum. The analysis of the many-body interaction energy terms suggests that the global and low-lying ring networks are stabilized by the maximization of the many-body (mainly the 3-body) terms, whereas the higher lying minima are mainly described by 2-body interactions.
- Published
- 2002
25. Accurate theoretical study of the excited states of boron and aluminum carbides, BC, AlC. 2
- Author
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Tzeli, D. Mavridis, A.
- Subjects
Physics::Atomic and Molecular Clusters ,Physics::Chemical Physics - Abstract
Continuing our study on the electronic structure of the carbides BC and AlC (Tzeli, D.; Mavridis, A. J. Phys. Chem. A 2001, 105, 1175), we have investigated the electronic structure of 29 and 30 excited states of the BC and AlC molecules, respectively, by ab initio quantum mechanical multireference methods and quantitative basis sets. For both diatomic species we report complete potential energy curves, total energies, interatomic distances, dissociation energies, dipole moments, Mulliken charges, energy gaps, and usual spectroscopic constants. Our results are, in general, in good to very good agreement with the existing experimental values.
- Published
- 2001
26. First-principles investigation of the boron and aluminum carbides BC and AlC and their anions BC- and AlC
- Author
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Tzeli, D. Mavridis, A.
- Abstract
Using ab initio multireference methods and large correlation consistent basis sets, we have investigated the ground electronic structure of the carbides BC and AlC, the ground and the first two excited states of the corresponding anions, BC- and AlC-, and the ground (linear) structures of the hydrides H-BC and H-AlC. By employing a series of increasing size basis sets for the BC molecule, i.e., cc-pV/iZ, aug-cc-pVnZ, cc-pCVnZ, and aug-cc-pCVnZ, n = 2, 3, 4, and 5, we have examined the convergence of its properties as a function of n. For both the neutral diatomic species and their anions we have obtained full potential energy curves, bond distances (re), dissociation energies (De), and the usual spectroscopic constants. For the BC molecule, our best re and De values are re = 1.4911 Å and De = 102.2 kcal/mol in excellent agreement with experimental results. In the AlC case the calculated De = 77.13 kcal/mol is at least 12 kcal/mol higher than the experimental number. No experimental or theoretical data exist in the literature for the anion BC-. For this system we obtain re = 1.4445 Å and De = 118.67 kcal/mol; the corresponding values of the AlC- species are re = 1.8945 Å and De = 77.16 kcal/mol. © 2001 American Chemical Society.
- Published
- 2001
27. A first principles study of the acetylene-water interaction
- Author
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Tzeli, D. Mavridis, A. Xantheas, S.S.
- Abstract
We present an extensive study of the stationary points on the acetylene-water (AW) ground-state potential energy surface (PES) aimed in establishing accurate energetics for the two different bonding scenarios that are considered. Those include arrangements in which water acts either as a proton acceptor from one of the acetylene hydrogen atoms or a proton donor to the triple bond. We used a hierarchy of theoretical methods to account for electron correlation [MP2 (second-order Moller-Plesset), MP4 (fourth-order Moller-Plesset), and CCSD(T) (coupled-cluster single double triple)] coupled with a series of increasing size augmented correlation consistent basis sets (aug-cc-pVnZ, n = 2,3,4). We furthermore examined the effect of corrections due to basis set superposition error (BSSE). We found that those have a large effect in altering the qualitative features of the PES of the complex. They are responsible for producing a structure of higher (C2v) symmetry for the global minimum. Zero-point energy (ZPE) corrections were found to increase the stability of the C2v arrangement. For the global (water acceptor) minimum of C2v symmetry our best estimates are ΔEe = -2.87 kcal/mol (ΔE0= -2.04 kcal/mol) and a van der Waals distance of Re= 2.190 Å. The water donor arrangement lies 0.3 kcal/mol (0.5 kcal/mol including ZPE corrections) above the global minimum. The barrier for its isomerization to the global minimum is Ee = 0.18 kcal/mol; however, inclusion of BSSE- and ZPE-corrections destabilize the water donor arrangement suggesting that it can readily convert to the global minimum. We therefore conclude that there exists only one minimum on the PES in accordance with previous experimental observations. To this end, vibrational averaging and to a lesser extend proper description of intermolecular interactions (BSSE) were found to have a large effect in altering the qualitative features of the ground-state PES of the acetylene-water complex. © 2000 American Institute of Physics.
- Published
- 2000
28. The electronic structure of ScAl+. Ground and low-lying excited states
- Author
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Tzeli, D. Mavridis, A.
- Abstract
Using semiquantitative basis sets and ab initio multireference methods, we have investigated the electronic structure of scandium aluminide cation, ScAl+. In addition to the ground state (X2Δ), we have constructed potential energy curves for 20 more states spanning an energy range of no more than 1.5 eV. The first three states, X2Δ, 12∏, and 22∑+, are practically degenerate within the accuracy of our calculations. They have similar binding modes and a binding energy of about 30 kcal/mol with respect to their adiabatic fragments Sc(2D) + A1+(1S). The rest of the states correlate to Sc+(3D or 3F) + Al(2P). For all states we report bond lengths, dissociation energies, harmonic frequencies, Mulliken charges, and energy gaps. © 2000 American Chemical Society.
- Published
- 2000
29. On the electronic structure of NLi2 and PLi2, ground and low-lying excited states
- Author
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Tzeli, D. Papakondylis, A. Mavridis, A.
- Abstract
The ground states of the isovalent molecules NLi2 (X̄2Π0) and PLi2 (X̄2B1), along with some low-lying excited states (2B2,4Σg-, 2Σg-, 4Σu-, 2Σu-, and 2A1) have been examined using ab initio CISD, CASSCF, and MRCI methods in conjunction with relatively large correlation consistent basis sets. We report total energies, geometries, binding energies, Mulliken charges, energy gaps, and for certain states, potential energy curves. All states examined are bound with respect to the ground-state atoms N or P(4S) + 2Li(2S), while the mean binding energies N-Li and P-Li of NLi2 and PLi2 are 42.5 and 40.2 kcal/mol, respectively.
- Published
- 1998
30. On the electronic structure of the ground (X3Σ-) and some low-lying excited states (A3Π, a1Δ, b1Σ+, B3Σ-) of the isovalent species P-Li and P-Na
- Author
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Tzeli, D. Papakondylis, A. Mavridis, A.
- Abstract
The electronic structure of the isovalent P-Li and P-Na species in their ground X3Σ- state and low-lying excited states, A3Π, a1Δ, b1Σ+ and B3Σ-, has been studied employing CISD, CASSCF and multireference CI techniques. For both molecules and all states studied, we report full potential energy curves, dissociation energies, bond lengths, and spectroscopic constants. © 1997 Elsevier Science B.V.
- Published
- 1997
31. First Principles Examination of the Acetylene−Water Clusters, HCCH−(H<INF>2</INF>O)<INF>x</INF><INF></INF>, x = 2, 3, and 4
- Author
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Tzeli, D., Mavridis, A., and Xantheas, S. S.
- Abstract
The acetylene−water (A−W) interactions have been investigated by examining the van der Waals clusters AW
x , x = 2, 3, and 4, at the second order (MP2) perturbation theory using the correlation-consistent basis sets, aug-cc-pVnZ, n = D (AW 2 , AW3 , and AW4 ), T (AW2 ). We located 4 minima (m) and 2 saddle points (sp), 10 m and 3 sp, and 30 m and 3 sp on the potential energy surfaces of the AW2 , AW3 , and AW4 clusters, respectively. We report the fully optimized geometries and interaction energies ΔEe , including corrections for basis set superposition error, ΔEe (BSSE), as well as zero-point energies, ΔE0 (BSSE), for the various stationary points. The global minima of the AW2 and AW3 clusters are cyclic configurations in which the acetylene molecule inserts into the water hydrogen bonding network. The corresponding interaction energies ΔEe (BSSE)[ΔE0 (BSSE)] are AW2 , −10.37 [−6.70] kcal/mol (MP2/aug-cc-pVTZ) and AW3 , −17.80 [−11.46] kcal/mol (MP2/aug-cc-pVDZ). The global minimum of AW4 corresponds to a van der Waals complex between a cyclic water tetramer W4 and A with an interaction energy of −28.01 [−18.67] kcal/mol (MP2/aug-cc-pVDZ). The 4 and 10 local minima for the x = 2 and 3 clusters span an energy range of 4.3 and 6.1 kcal/mol above the respective global minima. For AW4 , the energy range for the 30 minima is 14.1 kcal/mol; however, the first 28 lie within 8.4 kcal/mol above the global minimum. The analysis of the many-body interaction energy terms suggests that the global and low-lying ring networks are stabilized by the maximization of the many-body (mainly the 3-body) terms, whereas the higher lying minima are mainly described by 2-body interactions.- Published
- 2002
- Full Text
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32. Accurate Theoretical Study of the Excited States of Boron and Aluminum Carbides, BC, AlC. 2
- Author
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Tzeli, D. and Mavridis, A.
- Abstract
Continuing our study on the electronic structure of the carbides BC and AlC ( Tzeli, D.; Mavridis, A. J. Phys. Chem. A
2001 , 105, 1175), we have investigated the electronic structure of 29 and 30 excited states of the BC and AlC molecules, respectively, by ab initio quantum mechanical multireference methods and quantitative basis sets. For both diatomic species we report complete potential energy curves, total energies, interatomic distances, dissociation energies, dipole moments, Mulliken charges, energy gaps, and usual spectroscopic constants. Our results are, in general, in good to very good agreement with the existing experimental values.- Published
- 2001
33. First-Principles Investigation of the Boron and Aluminum Carbides BC and AlC and Their Anions BC<SUP>-</SUP> and AlC<SUP>-</SUP>. 1
- Author
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Tzeli, D. and Mavridis, A.
- Abstract
Using ab initio multireference methods and large correlation consistent basis sets, we have investigated the ground electronic structure of the carbides BC and AlC, the ground and the first two excited states of the corresponding anions, BC- and AlC-, and the ground (linear) structures of the hydrides H−BC and H−AlC. By employing a series of increasing size basis sets for the BC molecule, i.e., cc-pVnZ, aug-cc-pVnZ, cc-pCVnZ, and aug-cc-pCVnZ, n = 2, 3, 4, and 5, we have examined the convergence of its properties as a function of n. For both the neutral diatomic species and their anions we have obtained full potential energy curves, bond distances (r
e ), dissociation energies (De ), and the usual spectroscopic constants. For the BC molecule, our best re and De values are re = 1.4911 Å and De = 102.2 kcal/mol in excellent agreement with experimental results. In the AlC case the calculated De = 77.13 kcal/mol is at least 12 kcal/mol higher than the experimental number. No experimental or theoretical data exist in the literature for the anion BC-. For this system we obtain re = 1.4445 Å and De = 118.67 kcal/mol; the corresponding values of the AlC- species are re = 1.8945 Å and De = 77.16 kcal/mol.- Published
- 2001
34. A molecular level study of the aqueous microsolvation of acetylene
- Author
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Tzeli, D., Mavridis, A., and Xantheas, S. S.
- Published
- 2001
- Full Text
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35. The Electronic Structure of ScAl<SUP>+</SUP>. Ground and Low-Lying Excited States
- Author
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Tzeli, D. and Mavridis, A.
- Abstract
Using semiquantitative basis sets and ab initio multireference methods, we have investigated the electronic structure of scandium aluminide cation, ScAl+. In addition to the ground state (X2Δ), we have constructed potential energy curves for 20 more states spanning an energy range of no more than 1.5 eV. The first three states, X2Δ, 12Π, and 22Σ+, are practically degenerate within the accuracy of our calculations. They have similar binding modes and a binding energy of about 30 kcal/mol with respect to their adiabatic fragments Sc(2D) + Al+(1S). The rest of the states correlate to Sc+(3D or 3F) + Al(2P). For all states we report bond lengths, dissociation energies, harmonic frequencies, Mulliken charges, and energy gaps.
- Published
- 2000
36. On the Electronic Structure of NLi<INF>2</INF> and PLi<INF>2</INF>, Ground and Low-Lying Excited States
- Author
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Tzeli, D., Papakondylis, A., and Mavridis, A.
- Abstract
The ground states of the isovalent molecules NLi
2 (&Xtilde;2Πu ) and PLi2 (&Xtilde;2B1 ), along with some low-lying excited states (2B2 ,4Σg -, 2Σg -, 4Σu -, 2Σu -, and 2A1 ), have been examined using ab initio CISD, CASSCF, and MRCI methods in conjunction with relatively large correlation consistent basis sets. We report total energies, geometries, binding energies, Mulliken charges, energy gaps, and for certain states, potential energy curves. All states examined are bound with respect to the ground-state atoms N or P(4S) + 2Li(2S), while the mean binding energies N−Li and P−Li of NLi2 and PLi2 are 42.5 and 40.2 kcal/mol, respectively.- Published
- 1998
37. First-principles investigation of the boron and aluminum carbides BC and AlC and their anions BC- and AlC
- Author
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Tzeli, D. and ARISTIDES MAVRIDIS
38. Importance of Electron Correlation on the Geometry and Electronic Structure of [2Fe-2S] Systems: A Benchmark Study of the [Fe 2 S 2 (SCH 3 ) 4 ] 2-,3-,4- , [Fe 2 S 2 (SCys) 4 ] 2- , [Fe 2 S 2 (S- p -tol) 4 ] 2- , and [Fe 2 S 2 (S- o -xyl) 4 ] 2- Complexes.
- Author
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Tzeli D, Golub P, Brabec J, Matoušek M, Pernal K, Veis L, Raugei S, and Xantheas SS
- Abstract
Iron-sulfur clusters are crucial for biological electron transport and catalysis. Obtaining accurate geometries, energetics, manifolds of their excited electronic states, and reduction energies is important to understand their role in these processes. Using a [2Fe-2S] model complex with Fe
II and FeIII oxidation states, which leads to different charges, i.e., [Fe2 S2 (SMe)4 ]2-,3-,4- , we benchmarked a variety of computational methodologies ranging from density functional theory (DFT) to post-Hartree-Fock methods, including complete active space self-consistent field (CASSCF), multireference configuration interaction, the second-order N-electron valence state perturbation theory (NEVPT2), and the linearized integrand approximation of adiabatic connection (AC0) approaches. Additionally, we studied three experimentally well-characterized complexes, [Fe2 S2 (SCys)4 ]2- , [Fe2 S2 (S- o -tol)4 ]2- , and [Fe2 S2 (S- o -xyl)4 ]2- , via DFT methods. We conclude that the dynamic electron correlation is important for accurately predicting the geometry of these complexes. Broken symmetry (BS) DFT correctly predicts experimental geometries of low-spin multiplicity, while CASSCF does not. However, BS-DFT significantly overestimates the difference between the low- and high-spin electronic states for a given oxidation state. At the same time, CASSCF underestimates it but provides relative energies closer to the reference NEVPT2 results. Finally, AC0 provides energetics of NEVPT2 quality with the additional advantage of being able to use large CASSCF sizes. NEVPT2 gives the best estimates of the FeIII /FeIII → FeII /FeIII (4.27 eV) and FeII /FIII → FeII /FII (7.72 eV) reduction energies. The results provide insight into the electronic structure of these complexes and assist in the understanding of their physical properties.- Published
- 2024
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39. Exploring Hypertension: The Role of AT1 Receptors, Sartans, and Lipid Bilayers.
- Author
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Georgiou N, Chontzopoulou E, Routsi EA, Stavrakaki IG, Petsas E, Zoupanou N, Kakava MG, Tzeli D, Mavromoustakos T, and Kiriakidi S
- Abstract
The rational design of AT1 receptor antagonists represents a pivotal approach in the development of therapeutic agents targeting cardiovascular pathophysiology. Sartans, a class of compounds engineered to inhibit the binding and activation of Angiotensin II on the AT1 receptor, have demonstrated significant clinical efficacy. This review explores the multifaceted role of sartans in mitigating hypertension and related complications. We highlight the integration of crystallography, computational simulations, and NMR spectroscopy to elucidate sartan-AT1 receptor interactions, providing a foundation for the next-generation antagonist design. The review also delves into the challenges posed by the high lipophilicity and suboptimal bioavailability of sartans, emphasizing advancements in nanotechnology and novel drug delivery systems. Additionally, we discuss the impact of lipid bilayers on the AT1 receptor conformation and drug binding, underscoring the importance of the lipidic environment in receptor-drug interactions. We suggest that optimizing drug design to account for these factors could enhance the therapeutic potential of AT1 receptor antagonists, paving the way for improved cardiovascular health outcomes., Competing Interests: The authors declare no competing financial interest., (© 2024 The Authors. Published by American Chemical Society.)
- Published
- 2024
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40. Copper-Catalyzed α-Alkylation of Aryl Acetonitriles with Benzyl Alcohols.
- Author
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Danopoulou M, Zorba LP, Karantoni AP, Tzeli D, and Vougioukalakis GC
- Abstract
A highly efficient, in situ formed CuCl
2 /TMEDA catalytic system (TMEDA = N , N , N ', N '-tetramethylethylene-diamine) for the cross-coupling reaction of aryl acetonitriles with benzyl alcohols is reported. This user-friendly protocol, employing a low catalyst loading and a catalytic amount of base, leads to the synthesis of α-alkylated nitriles in up to 99% yield. Experimental mechanistic investigations reveal that the key step of this transformation is the C(sp3 )-H functionalization of the alcohol, taking place via a hydrogen atom abstraction, with the simultaneous formation of copper-hydride species. Detailed density functional theory studies shed light on all reaction steps, confirming the catalytic pathway proposed on the basis of the experimental findings.- Published
- 2024
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41. Electron Donor-Acceptor Complex-Assisted Photochemical Conversion of O-2-Nitrobenzyl Protected Hydroxamates to Amides.
- Author
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Gerogiannopoulou AD, Mountanea OG, Routsi EA, Tzeli D, Kokotos CG, and Kokotos G
- Abstract
The hydroxamic acid functionality is present in various medicinal agents and has attracted special interest for synthetic transformations in both organic and medicinal chemistry. The N-O bond cleavage of hydroxamic acid derivatives provides an interesting transformation for the generation of various products. We demonstrate, herein, that O-benzyl-type protected hydroxamic acids may undergo photochemical N-O bond cleavage, in the presence or absence of a catalyst, leading to amides. Although some O-benzyl protected aromatic hydroxamates may be photochemically converted to amides in the presence of a base and anthracene as the catalyst, employing O-2-nitrobenzyl group allowed the smooth conversion of both aliphatic and aromatic hydroxamates to primary or secondary amides in good to excellent yields in the presence of an amine, bypassing the need of a catalyst. DFT and UV-Vis studies supported the effective generation of an electron donor-acceptor (EDA) complex between O-2-nitrobenzyl hydroxamates and amines, which enabled the successful product formation under these photochemical conditions. An extensive substrate scope was demonstrated, showcasing that both aliphatic and aromatic hydroxamates are compatible with this protocol, affording a wide variety of primary and secondary amides., (© 2024 The Author(s). Chemistry - A European Journal published by Wiley-VCH GmbH.)
- Published
- 2024
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- View/download PDF
42. Computational and Spectroscopic Studies on the Formation of Halogen-Bonded Complexes Between Tertiary Amines and CBr 4 and Application in the Light-Mediated Amino Acid Coupling.
- Author
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Routsi EA, Mantzourani C, Rrapi M, Mountanea OG, Kokotou MG, Tzeli D, Kokotos CG, and Kokotos G
- Abstract
In recent years, halogen-bonded complexes (XBCs), in solution, have played a pivotal role in inducing photochemical organic reactions. In this work, we explore the ability of various tertiary amines to act as XB acceptors in the presence of the XB donor CBr
4 by computational and spectroscopic studies. DFT studies clearly showcase the formation of XBCs between the studied tertiary amines and CBr4 . Simultaneously, computational and experimental UV-Vis studies display intense red shifts that are consistent with charge transfer observed from tertiary amines to CBr4 . A detailed NMR study revealed a clear chemical shift of the carbon carrying the bromine atoms upon mixing the XB acceptor with the donor, suggesting that this spectroscopic technique is indeed an experimental tool to identify the generation of XBCs. An application of the ability of such XBCs to activate a carboxylic acid under UVA irradiation or sunlight is presented for amino acid coupling. Among the various tertiary amines studied, the pair DABCO-CBr4 was found to work well for the photochemical amide bond formation. Direct infusion-HRMS studies allowed us to propose a general mechanism for the photochemical amino acid coupling in the presence of a tertiary amine and CBr4 , initiated by the photoactivation of an XBC., (© 2024 The Authors. ChemPlusChem published by Wiley-VCH GmbH.)- Published
- 2024
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- View/download PDF
43. Density functional theory and enzyme studies support interactions between angiotensin receptor blockers and angiotensin converting enzyme-2: Relevance to coronavirus 2019.
- Author
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Apostolopoulos V, Georgiou N, Tzeli D, Mavromoustakos T, Moore GJ, Kelaidonis K, Matsoukas MT, Tsiodras S, Swiderski J, Kate Gadanec L, Zulli A, Chasapis CT, and Matsoukas JM
- Subjects
- Humans, Biphenyl Compounds pharmacology, Biphenyl Compounds chemistry, Antiviral Agents pharmacology, Antiviral Agents chemistry, Antiviral Agents chemical synthesis, COVID-19 virology, Structure-Activity Relationship, Molecular Structure, Benzimidazoles pharmacology, Benzimidazoles chemistry, Tetrazoles pharmacology, Tetrazoles chemistry, Tetrazoles chemical synthesis, Angiotensin-Converting Enzyme Inhibitors pharmacology, Angiotensin-Converting Enzyme Inhibitors chemistry, Angiotensin-Converting Enzyme Inhibitors metabolism, COVID-19 Drug Treatment, Angiotensin-Converting Enzyme 2 metabolism, Angiotensin-Converting Enzyme 2 chemistry, SARS-CoV-2 drug effects, SARS-CoV-2 enzymology, Density Functional Theory, Angiotensin Receptor Antagonists pharmacology, Angiotensin Receptor Antagonists chemistry
- Abstract
The binding affinities and interactions between eight drug candidates, both commercially available (candesartan; losartan; losartan carboxylic acid; nirmatrelvir; telmisartan) and newly synthesized benzimidazole-N-biphenyltetrazole (ACC519T), benzimidazole bis-N,N'-biphenyltetrazole (ACC519T(2) and 4-butyl-N,N-bis([2-(2H-tetrazol-5-yl)biphenyl-4-yl]) methyl (BV6), and the active site of angiotensin-converting enzyme-2 (ACE2) were evaluated for their potential as inhibitors against SARS-CoV-2 and regulators of ACE2 function through Density Functional Theory methodology and enzyme activity assays, respectively. Notably, telmisartan and ACC519T(2) exhibited pronounced binding affinities, forming strong interactions with ACE2's active center, favorably accepting proton from the guanidinium group of arginine273. The ordering of candidates by binding affinity and reactivity descriptors, emerged as telmisartan > ACC519T(2) > candesartan > ACC519T > losartan carboxylic acid > BV6 > losartan > nirmatrelvir. Proton transfers among the active center amino acids revealed their interconnectedness, highlighting a chain-like proton transfer involving tyrosine, phenylalanine, and histidine. Furthermore, these candidates revealed their potential antiviral abilities by influencing proton transfer within the ACE2 active site. Furthermore, through an in vitro pharmacological assays we determined that candesartan and the BV6 derivative, 4-butyl-N,N0-bis[20-2Htetrazol-5-yl)bipheyl-4-yl]methyl)imidazolium bromide (BV6(K
+ )2 ) also contain the capacity to increase ACE2 functional activity. This comprehensive analysis collectively underscores the promise of these compounds as potential therapeutic agents against SARS-CoV-2 by targeting crucial protein interactions., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved.)- Published
- 2024
- Full Text
- View/download PDF
44. Docking, MD Simulations, and DFT Calculations: Assessing W254's Function and Sartan Binding in Furin.
- Author
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Georgiou N, Mavromoustakos T, and Tzeli D
- Abstract
Furins are serine endoproteases that are involved in many biological processes, where they play important roles in normal metabolism, in the activation of various pathogens, while they are a target for therapeutic intervention. Dichlorophenyl-pyridine "BOS" compounds are well known drugs that are used as inhibitors of human furin by an induced-fit mechanism, in which tryptophan W254 in the furin catalytic cleft acts as a molecular transition energy gate. The binding of "BOS" drug into the active center of furin has been computationally studied using the density functional theory (DFT) and ONIOM multiscaling methodologies. The binding enthalpies of the W254 with the furin-BOS is -32.8 kcal/mol ("open") and -18.8 kcal/mol ("closed"), while the calculated torsion barrier was found at 30 kcal/mol. It is significantly smaller than the value of previous MD calculations due to the relaxation of the environment, i.e., nearby groups of the W254, leading to the reduction of the energy demands. The significant lower barrier explains the experimental finding that the dihedral barrier of W254 is overcome. Furthermore, sartans were studied to evaluate their potential as furin inhibitors. Sartans are AT1 antagonists, and they effectively inhibit the hypertensive effects induced by the peptide hormone Angiotensin II. Here, they have been docked into the cavity to evaluate their effect on the BOS ligand via docking and molecular dynamics simulations. A consistent binding of sartans within the cavity during the simulation was found, suggesting that they could act as furin inhibitors. Finally, sartans interact with the same amino acids as W254, leading to a competitive binding that may influence the pharmacological efficacy and potential drug interactions of sartans.
- Published
- 2024
- Full Text
- View/download PDF
45. Quadruple bonds in MoC: Accurate calculations and precise measurement of the dissociation energy of low-lying states of MoC.
- Author
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Androutsopoulos A, Tzeli D, Tomchak KH, and Morse MD
- Abstract
In the present work, the electronic structure and chemical bonding of the MoC X3Σ- ground state and the six lowest excited states, A3Δ, a1Γ, b5Σ-, c1Δ, d1Σ+, and e5Π, have been investigated in detail using multireference configuration interaction methods and basis sets, including relativistic effective core potentials. In addition, scalar relativistic effects have been considered in the second order Douglas-Kroll-Hess approximation, while spin-orbit coupling has also been calculated. Five of the investigated states, X3Σ-, A3Δ, a1Γ, c1Δ, and d1Σ+, present quadruple σ2σ2π2π2 bonds. Experimentally, the predissociation threshold of MoC was measured using resonant two-photon ionization spectroscopy, allowing for a precise measurement of the dissociation energy of the ground state. Theoretically, the complete basis set limit of the calculated dissociation energy with respect to the atomic ground state products, including corrections for scalar relativistic effects, De(D0), is computed as 5.13(5.06) eV, in excellent agreement with our measured value of D0(MoC) of 5.136(5) eV. Furthermore, the calculated dissociation energies of the states having quadruple bonds with respect to their adiabatic atomic products range from 6.22 to 7.23 eV. The excited electronic states A3Δ2 and c1Δ2 are calculated to lie at 3899 and 8057 cm-1, also in excellent agreement with the experimental values of DaBell et al., 4002.5 and 7834 cm-1, respectively., (© 2024 Author(s). Published under an exclusive license by AIP Publishing.)
- Published
- 2024
- Full Text
- View/download PDF
46. Synthesis of Thiazolidin-4-Ones Derivatives, Evaluation of Conformation in Solution, Theoretical Isomerization Reaction Paths and Discovery of Potential Biological Targets.
- Author
-
Georgiou N, Karta D, Cheilari A, Merzel F, Tzeli D, Vassiliou S, and Mavromoustakos T
- Subjects
- Isomerism, Animals, Acetylcholinesterase chemistry, Acetylcholinesterase metabolism, Zebrafish, Magnetic Resonance Spectroscopy, Janus Kinase 3 antagonists & inhibitors, Janus Kinase 3 metabolism, Janus Kinase 3 chemistry, Molecular Structure, Molecular Docking Simulation, Molecular Conformation, Thiazolidines chemistry, Thiazolidines chemical synthesis
- Abstract
Thiazolin-4-ones and their derivatives represent important heterocyclic scaffolds with various applications in medicinal chemistry. For that reason, the synthesis of two 5-substituted thiazolidin-4-one derivatives was performed. Their structure assignment was conducted by NMR experiments (2D-COSY, 2D-NOESY, 2D-HSQC and 2D-HMBC) and conformational analysis was conducted through Density Functional Theory calculations and 2D-NOESY. Conformational analysis showed that these two molecules adopt exo conformation. Their global minimum structures have two double bonds (C=N, C=C) in Z conformation and the third double (C=N) in E. Our DFT results are in agreement with the 2D-NMR measurements. Furthermore, the reaction isomerization paths were studied via DFT to check the stability of the conformers. Finally, some potential targets were found through the SwissADME platform and docking experiments were performed. Both compounds bind strongly to five macromolecules (triazoloquinazolines, mglur3, Jak3, Danio rerio HDAC6 CD2, acetylcholinesterase) and via SwissADME it was found that these two molecules obey Lipinski's Rule of Five.
- Published
- 2024
- Full Text
- View/download PDF
47. Erratum: "Breaking covalent bonds in the context of the many-body expansion (MBE). I. The purported 'first row anomaly' in XHn (X = C, Si, Ge, Sn; n = 1-4)" [J. Chem. Phys. 156, 244303 (2022)].
- Author
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Tzeli D and Xantheas SS
- Published
- 2024
- Full Text
- View/download PDF
48. Electronic Structure and Chemical Bonding of the First-, Second-, and Third-Row-Transition-Metal Monoborides: The Formation of Quadruple Bonds in RhB, RuB, and TcB.
- Author
-
Demetriou C, Tzeliou CE, Androutsopoulos A, and Tzeli D
- Abstract
Boron presents an important role in chemistry, biology, and materials science. Diatomic transition-metal borides (MBs) are the building blocks of many complexes and materials, and they present unique electronic structures with interesting and peculiar properties and a variety of bonding schemes which are analyzed here. In the first part of this paper, we present a review on the available experimental and theoretical studies on the first-row-transition-metal borides, i.e., ScB, TiB, VB, CrB, MnB, FeB, CoB, NiB, CuB, and ZnB; the second-row-transition-metal borides, i.e., YB, ZrB, NbB, MoB, TcB, RuB, RhB, PdB, AgB, and CdB; and the third-row-transition-metal borides, i.e., LaB, HfB, TaB, WB, ReB, OsB, IrB, PtB, AuB, and HgB. Consequently, in the second part, the second- and third-row MBs are studied via DFT calculations using the B3LYP, TPSSh, and MN15 functionals and, in some cases, via multi-reference methods, MRCISD+Q, in conjunction with the aug-cc-pVQZ-PP
M /aug-cc-pVQZB basis sets. Specifically, bond distances, dissociation energies, frequencies, dipole moments, and natural NPA charges are reported. Comparisons between MB molecules along the three rows are presented, and their differences and similarities are analyzed. The bonding of the diatomic borides is also described; it is found that, apart from RhB( X1 Σ+ ), which was just recently found to form quadruple bonds, RuB( X2 Δ) and TcB( X3 Σ- ) also form quadruple σ2 σ2 π2 π2 bonds in their X states. Moreover, to fill the gap existing in the current literature, here, we calculate the TcB molecule.- Published
- 2023
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49. Microwave-Assisted, Copper-Catalyzed Domino O-H/C-H Arylation Reaction toward the Synthesis of Oxygen-Doped Polyaromatic Molecules.
- Author
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Kaplanai E, Tonis E, Drymona M, Zagranyarski Y, Tzeli D, and Vougioukalakis GC
- Abstract
Benzoxanthenes and their analogues are a very important class of compounds mainly due to their wide range of biological and technological applications. The development of a new methodology for their synthesis, involving an Ullmann-type coupling followed by an intramolecular C-H arylation, catalyzed by copper in a domino fashion, is reported. A variety of para -substituted phenols are amenable to this methodology, affording the desired products in moderate to good yields. Our protocol is expedient and practical and is carried out under microwave irradiation in only 3 min under air. A plausible catalytic cycle is proposed based on experimental mechanistic investigations and density functional theory (DFT) calculations.
- Published
- 2023
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50. Electronic structure of low-lying states of triatomic MoS2 molecule. The building block of 2D MoS2.
- Author
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Mermigki MA, Karapetsas I, and Tzeli D
- Abstract
Molybdenum disulfide (MoS2) is the building component of 1D-monolayer, 2D-layered nanosheets and nanotubes having many applications in industry, and it is detected in molecular systems observed in nature. Here, the electronic structure and the chemical bonding of sixteen low-lying states of the triatomic MoS2 molecule are investigated, while the connection of the chemical bonding of the isolated MoS2 molecule to the relevant 2D-MoS2, is emphasized. The MoS2 molecule is studied via DFT and multireference methodologies, i.e., MRCISD(+Q)/aug-cc-pVQZ(-PP)Mo. The ground state, 3B1, is bent (Mo-S=2.133 Å and φ(SMoS)=115.9°) with a dissociation energy to atomic products of 194.7 kcal/mol at MRCISD+Q. In the ground and in the first excited state a double bond is formed between Mo and each S atom, i.e., . These two states differ in which d electrons of Mo are unpaired. The Mo-S bond distances of the calculated states range from 2.108-2.505 Å, the SMoS angles range from 104.1-180.0°, and the Mo-S bonds are single or double. Potential energy curves and surfaces have been plotted for the 3B1, 5A1 and 5B1 states. Finally, the low-lying septet states of the triatomic molecule are involved in the material as a building block, explaining the variety of its morphologies., (© 2023 Wiley-VCH GmbH.)
- Published
- 2023
- Full Text
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