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1.
Phys Chem Chem Phys ; 2020 May 19.
Artigo em Inglês | MEDLINE | ID: mdl-32426780

RESUMO

In this paper we report on the use of an Ullmann-like aryl halide homocoupling reaction to obtain long Graphyne Molecular Wires (GY MWs) organized in dense, ordered arrays. Instead of using highly reactive terminal alkynes, we resort to a precursor wherein the acetylenic functional group is internal, namely protected by two phenyl rings, each bearing a Br atom in the para position to allow for linear homocoupling. In addition, two further factors concur with the production of dense and highly ordered arrays of very long GY MWs, namely the geometric compatibility between the substrate and both the organometallic intermediates and the final polymeric products of the synthesis, coupled with the presence of surface-adsorbed bromine atoms separating the MWs, which minimize inter-wire cross-linking secondary reactions.

2.
Inorg Chem ; 58(24): 16411-16423, 2019 Dec 16.
Artigo em Inglês | MEDLINE | ID: mdl-31756086

RESUMO

The unoccupied electronic structures of three closed-shell, highly popular organoiron complexes ([Fe(CO)5], [(η5-C5H5)Fe(CO)(µ-CO)]2, and [(η5-C5H5)2Fe]; 0, I, and II, respectively) have been investigated both experimentally and theoretically by combining original gas-phase X-ray absorption spectroscopy (XAS) outcomes recorded at the C and O K-edge with results of scalar relativistic time-dependent density functional calculations carried out within the zeroth order regular approximation. Experimental evidence herein discussed complement the Fe L2,3-edges XAS ones we recently recorded, modeled, and assigned for the same complexes (Carlotto et al. Inorg. Chem. 2019, 58, 5844). The first-principle simulation of the C and O K-edge features allowed us to univocally identify the electronic states associated to the ligand-to-metal charge transfer (LMCT) transitions both in I and in II. At variance to that, LMCT transitions with sizable oscillator strengths do not play any role in determining neither the C nor the O K-edge spectral pattern of 0. The higher π-acceptor capability of the CO ligand, regardless of its terminal or bridging coordination, with respect to [(η5-C5H5)]- is herein ultimately confirmed.

3.
Metallomics ; 11(11): 1800-1804, 2019 11 01.
Artigo em Inglês | MEDLINE | ID: mdl-31657408

RESUMO

Model peptides relevant to hCtr1 transchelate CuI from the anti-tumour [CuI(PTA)4]+ complex before metal internalization into tumor cells. ESI(+)MS experiments corroborated by DFT calculations indicate that tetracoordinated-CuII and linear-CuI arrangements of in situ generated copper-peptide products play a crucial role in promoting the transfer of copper from the terminal MDH portion into adjacent HSH peptide sequence.

4.
Dalton Trans ; 48(35): 13491-13492, 2019 09 21.
Artigo em Inglês | MEDLINE | ID: mdl-31453993

RESUMO

Correction for 'New light on an old debate: does the RCN-PtCl2 bond include any back-donation? RCN ← PtCl2 backbonding vs. the IR νC[triple bond, length as m-dash]N blue-shift dichotomy in organonitriles-platinum(ii) complexes. A thorough density functional theory - energy decomposition analysis study' by Girolamo Casella et al., Dalton Trans., 2019, DOI: 10.1039/c9dt02440a.

5.
Dalton Trans ; 48(34): 12974-12985, 2019 Sep 14.
Artigo em Inglês | MEDLINE | ID: mdl-31397469

RESUMO

For a series of organonitrile [RCN (R = Me, CF3, Ph, CH3Ph, CF3Ph)] ligands, the nature of the N-Pt bond in the related cis-/trans-(RCN)2PtCl2 complexes has been computationally investigated by Density Functional Theory. A fragment based bond analysis has been performed in the canonical Kohn-Sham molecular orbitals framework, and it has been ultimately assessed that this bond is characterized both by N→Pt σ and by N←Pt π contributions. Voronoi Deformation Density charges further confirms the occurrence of N←Pt π interactions. Moreover, the Energy Decomposition Analysis-Natural Orbital for Chemical Valence (EDA-NOCV) method shows that the strength of the N←Pt π interaction is not negligible by contributing to about 30-40% of the total orbital interaction. Finally, the well-known νC[triple bond, length as m-dash]N blue-shift occurring upon coordination to PtII, has been thoroughly investigated by exploiting the EDA-NOCV and by evaluating νC[triple bond, length as m-dash]N and force constants. The origin of the νC[triple bond, length as m-dash]N blue-shift in these systems has been discussed on the basis of the CN bond polarization. N←Pt π backbonding causes only a systematic decrease of the observed νC[triple bond, length as m-dash]N blue-shift when compared to the one calculated for RCN-X (X = H+, alkaline, Lewis acids) herein reported (X = purely σ acceptors).

6.
Inorg Chem ; 58(9): 5844-5857, 2019 May 06.
Artigo em Inglês | MEDLINE | ID: mdl-30998004

RESUMO

The occupied and unoccupied electronic structures of three highly popular, closed shell organoiron complexes ([Fe(CO)5], [(η5-C5H5)Fe(CO)(µ-CO)]2, and [(η5-C5H5)2Fe]) have been theoretically investigated by taking advantage of density functional theory (DFT) calculations coupled to the isolobal analogy ( Elian et al. Inorg. Chem. 1976 , 15 , 1148 ). The adopted approach allowed us to look into the relative role played by the ligand → Fe donation and the Fe → ligand back-donation in title molecules, as well as to investigate how CO- (terminal or bridging) and [(η5-C5H5)]--based π* orbitals compete when these two ligands are simultaneously present as in [(η5-C5H5)Fe(CO)(µ-CO)]2. Insights into the nature and the strength of the bonding between Fe and the C donor atoms have been gained by exploiting the Nalewajski-Mrozek bond multiplicity index ( Nalewajski et al. Int. J. Quantum Chem. 1994 , 51 , 187 ), which have been found especially sensitive even to tiny bond distance variations. The bonding picture emerging from ground state DFT results proved fruitful to guide the assignment of original, high-resolution, gas-phase L2,3-edges X-ray absorption spectra of the title molecules, which have been modeled by the two-component relativistic time-dependent DFT including spin orbit coupling and correlation effects and taking advantage of the full use of symmetry. Assignments alternative to those reported in the literature for both [Fe(CO)5] and [(η5-C5H5)2Fe] are herein proposed. Despite the high popularity of the investigated molecules, the complementary use of symmetry, orbital, and spectroscopy allowed us to further look into the metal-ligand symmetry-restricted-covalency and the differential-orbital covalency, which characterize them.

7.
Chem Commun (Camb) ; 54(68): 9418-9421, 2018 Aug 21.
Artigo em Inglês | MEDLINE | ID: mdl-30091439

RESUMO

Dioxygen adsorbs in the end-on configuration on-top of the Fe atoms of an iron phthalocyanine monolayer supported on Ag(100) and is partly cleaved at room temperature to produce O/FePc/Ag(100). Scanning tunnelling microscopy coupled to density functional theory calculations gives the first experimental evidence of the substrate involvement in the O2 bond dissociation.

8.
Inorg Chem ; 57(4): 1859-1869, 2018 Feb 19.
Artigo em Inglês | MEDLINE | ID: mdl-29389113

RESUMO

The electronic properties of three vanadium phthalocyaninato (Pc) based complexes (PcV, PcVO, and PcVI; I-III, respectively) were theoretically investigated and corresponding VL2,3-edge XAS spectra modeled. Ground state (GS) DFT outcomes indicated that II is more stable than III by 141 kcal/mol; moreover, the Ziegler transition state method allowed us to estimate the PcV-X bond dissociation energy and to quantify σ/π contributions to the V-X interaction. As such, the Nalewajski-Mrozek V-X and V-N bond multiplicity indexes (V-O/V-I = 2.48/1.22; V-N = 0.64, 0.51, and 0.58 in I-III, respectively) state that the V-X bond strength and nature affect the V-N interaction. The coordination of X to V in the I → II/I → III reactions implies the transfer of two/one electrons from I to X. In both cases, the oxidation involves only the V ion; moreover, V 3d based orbitals from which electrons are transferred were identified. Literature I/IIL2,3-edge XAS data were modeled by exploiting the DFT/ROCIS method. The same protocol was adopted to predict IIIL2,3-edge XAS spectra. Theoretical results indicated that, along the whole series, spectral features lying at the lowest excitation energies (EEs) are mostly generated by states having the same GS spin multiplicity and involve 2pV → SOMO (single occupied molecular orbital) single electronic excitations. XAS features at higher EEs include only states with the same GS spin multiplicity in I, while states with both ΔS = 0 and ΔS = +1 (S = total spin quantum number) are present in II and III with significant, in some cases prevailing, contributions from metal to ligand charge transfer (MLCT) excitations. Beyond the role played by MLCT transitions in determining XAS patterns, it is noteworthy that they involve only Pc-based empty orbitals with no participation of the X-based virtual levels.

9.
Phys Chem Chem Phys ; 18(48): 33282-33286, 2016 Dec 07.
Artigo em Inglês | MEDLINE | ID: mdl-27896341

RESUMO

The energetics of the catalytic oxidation of CO on a complex metal oxide are investigated for the first time via density functional theory calculations. The catalyst, Co-doped SrTiO3, is modelled using periodically repeated slabs based on the SrTiO3(100) surface. The comparison of the energy profiles obtained for the pure host and the Co-doped material reveals the actual pathway followed by the reaction, and shows that Co doping enhances the catalytic properties of SrTiO3 by reducing the energy cost for the formation of oxygen vacancies.

10.
Phys Chem Chem Phys ; 18(36): 24890-904, 2016 Sep 28.
Artigo em Inglês | MEDLINE | ID: mdl-27412494

RESUMO

The unoccupied electronic structure of thick films of tetraphenylporphyrin and tetrakis(pentafluorophenyl)porphyrin Cu(ii) complexes (hereafter, CuTPP and CuTPP(F)) deposited on Au(111) has been studied by combining the outcomes of near-edge X-ray absorption fine structure (NEXAFS) spectroscopy with those of spin-unrestricted time-dependent density functional (TD-DFT) calculations carried out either within the scalar relativistic zeroth order regular approximation (ZORA) framework (C, N and F K-edges) or by using the Tamm-Dancoff approximation coupled to ZORA and including spin-orbit effects (Cu L2,3-edges). Similarly to the modelling of NEXAFS outcomes pertaining to other Cu(ii) complexes, the agreement between theory and experiment is more than satisfactory, thus confirming the open-shell TD-DFT to be a useful tool to look into NEXAFS results pertinent to Cu(ii) compounds. The combined effect of metalation and phenyl (Ph) fluorine decoration is found to favour an extensive mixing between (Ph)σ* and pristine porphyrin macrocyle (pmc) (pmc)π* virtual levels. The lowest lying excitation in the C and N K-edge spectra of both CuTPP and CuTPP(F) is associated with a ligand-to-metal-charge-transfer transition, unambiguously revealed in the (CuTPP)N K-edge spectral pattern. Moreover, the comparison with literature data pertaining to the modelling of the (Cu(II))L2,3 features in the phthalocyanine-Cu(ii) (CuPc) complex provided further insights into how metal-to-ligand-charge-transfer transitions associated with excitations from 2p(Cu(II)) AOs to low-lying, ligand-based π* MOs may contribute to the Cu(ii) L2,3-edge intensity and thus weaken its believed relationship with the Cu(ii)-ligand symmetry-restricted covalency. Despite the coordinative pocket of CuTPP/CuTPP(F) mirroring CuPc, the ligand-field strength exerted by the phthalocyanine ligand on the Cu(ii) centre is experimentally found and theoretically confirmed to be slightly stronger than that experienced by Cu in CuTPP and CuTPP(F). On the whole, the obtained results complement those published in the near past by the same group on the occupied and empty states of the H2TPP and H2TPP(F) free ligands as well as on the occupied states of both CuTPP and CuTPP(F), thus providing the final piece to get a thorough description of electronic perturbations associated with the metalation and the Ph halogen decoration of H2TPP.

11.
Phys Chem Chem Phys ; 18(28): 18727-38, 2016 Jul 28.
Artigo em Inglês | MEDLINE | ID: mdl-27166746

RESUMO

Copper complexes of tetraphenylporphyrin (H2TPP) and tetrakis(pentafluorophenyl)porphyrin (H2TPP(F)) deposited as thin films on Au(111) have been studied experimentally and theoretically. Core level emissions from C 1s, N 1s, F 1s and Cu 2p as well as valence states of CuTPP and CuTPP(F) have been investigated using surface photoelectron spectroscopy. The interpretation of experimental results has been guided by theoretical calculations carried out on isolated species in the habit of the density functional theory. Reference to experimental and theoretical outcomes pertaining to H2TPP and H2TPP(F) allowed a confident and detailed assignment of the title molecules' X-ray and ultraviolet photoemission data. With specific reference to the latter, similar to copper phthalocyanine (CuPc), whose coordinative pocket mirrors the CuTPP/CuTPP(F) ones, the lowest ionization energy of the title compounds implies electron ejection from a ring orbital rather than from the Cu 3d-based singly occupied molecular orbital. Moreover, analogous to CuPc, the ionic contribution appears to play an important role in the Cu-N bonding. Nevertheless, differences in the number, symmetry, nature and relative position of CuTPP/CuTPP(F) occupied frontier orbitals compared to CuPc may be stated only by considering in great detail the Cu-ligand covalent interactions.

12.
Phys Chem Chem Phys ; 18(3): 2242-9, 2016 Jan 21.
Artigo em Inglês | MEDLINE | ID: mdl-26695412

RESUMO

Mn(acac)2 (I) and Co(acac)2 (II) L2,3-edge absorption spectra have been modeled using the DFT/ROCIS method. In addition to the agreement between experiment and theory, the combined use of the B3LYP exchange-correlation functional and the def2-TZVP(-f) basis set provided useful information about the coordinative geometry around the M(ii) ions as well as about the nature and the strength of the Mn-O and Co-O interaction. The lower excitation energy (EE) side of both (I)(/)(II)L3 and (I)(/)(II)L2 intensity distributions mainly includes states having ground state spin multiplicity (S = 5/2 in I and S = 3/2 in II), whereas states with lower spin multiplicity (S = 3/2 in I and S = 1/2 in II) significantly contribute to the higher EE side of both (I)(/)(II)L3 and (I)(/)(II)L2. Hence, the occurrence of states involving metal to ligand charge transfer transitions in the presence of ligands with low lying empty π* orbitals on the L3 and L2 higher EE sides is herein confirmed.

13.
J Phys Chem A ; 118(26): 4808-15, 2014 Jul 03.
Artigo em Inglês | MEDLINE | ID: mdl-24905076

RESUMO

The calculation of the power conversion efficiency (PCE) value for a bulk heterojunction (BHJ) organic solar cell is complex due to the wide number of parameters involved in the processes. This study focuses the attention on the molecular parameters involved into the open circuit voltage and the PCE definitions and in particular on the electronic coupling and on the lowest unoccupied molecular orbital (LUMO) of the acceptor. A simplified model system composed by a polymer as donor and a novel class of molecules (9,9'-bisfluorenylidene derivatives) as acceptor has been proposed as prototype to simulate the BHJ organic solar cell interface. Several substituents on different positions are tested and the chemical nature/position of substituents have a relevant influence on the electronic coupling and energy level values. Geometrical and electronic properties are obtained using density functional theory (DFT) and time-dependent (TD)-DFT calculations, respectively. A new hypothesis suggests that the minimization of the electronic coupling between the LUMO of the acceptor and the highest occupied molecular orbital (HOMO) of the donor can enhance the PCE reducing the recombination interface processes and calculations showing the possibility to minimize this parameter and fine-tune acceptor energy level through the acceptor functionalization. An accurate balance between electronic coupling and on the LUMO of the acceptor allows to propose the more performing candidate as electron acceptor in a P3HT/99'BF derivative BHJ solar cell.

14.
J Phys Chem A ; 116(15): 3926-33, 2012 Apr 19.
Artigo em Inglês | MEDLINE | ID: mdl-22429261

RESUMO

We present a computational study based on accurate DFT and TD-DFT methods on model bioinspired donor-acceptor dyads, formed by a carotenoid covalently linked to a tetraphenylporphyrin (TPP) at the ortho position of one of the TPP phenyl rings. Dyadic systems can be used in the construction of organic solar cells and development of efficient photocatalytic systems for the solar energy conversion, due to the unique advantages they offer in terms of synthetic feasibility. This study aims to describe the influence of chemical modifications on the absorption spectra, in particular on the lowest energy charge transfer bands. Effects of different metals of biological interest, i.e., Mg, Fe, Ni, and Zn, and of H(2)O and histidine molecules coordinated to the metals in different axial positions are rationalized.


Assuntos
Carotenoides/química , Transferência de Energia , Porfirinas/química , Metais
15.
J Phys Chem B ; 115(44): 13026-36, 2011 Nov 10.
Artigo em Inglês | MEDLINE | ID: mdl-21970372

RESUMO

In this paper, we address the interpretation of molecular properties of selected singly and doubly spin-labeled peptides from continuous-wave electron spin resonance (cw-ESR) spectroscopy. This study is performed by means of an integrated computational approach that merges a stochastic treatment of long-term dynamics to ad hoc methodologies for the calculation of structural properties. In particular, our method is based on (i) the determination of geometric and local magnetic parameters of the peptides by quantum mechanical density functional calculations by taking into account solvent contribution; (ii) the hydrodynamic evaluation of dissipative properties; and (iii) molecular dynamics including equilibrium distribution of molecular conformations. The system is then described by a stochastic Liouville equation in which the spin Hamiltonian for the two electron spins, interacting with each other and coupled to two (14)N nuclear spins, is coupled to the diffusive operator describing the time evolution of slow coordinates. cw-ESR spectra are simulated for selected peptides built from the non-natural α-aminoacids α-aminoisobutyric acid (Aib) and 2,2,6,6-tetramethylpiperidine-1-oxyl-4-amino-4-carboxylic acid (TOAC). In particular, we study the -Aib-TOAC-Aib- singly labeled tripeptide and the -Aib-TOAC-(Aib)(7)- singly labeled and -Aib-TOAC-(Aib)(5)-TOAC-Aib- doubly labeled nonapeptides. We show that good agreement is obtained with minimal resorting to fitting procedures, proving that the combination of sensitive ESR spectroscopy and sophisticated modeling is a powerful approach to the investigation of both molecular dynamics and 3D-structural properties.


Assuntos
Ácidos Aminoisobutíricos/química , Óxidos N-Cíclicos/química , Espectroscopia de Ressonância de Spin Eletrônica/métodos , Oligopeptídeos/química , Marcadores de Spin , Acetonitrilos/química , Congelamento , Modelos Moleculares , Estrutura Secundária de Proteína , Difração de Raios X
16.
J Phys Chem B ; 112(27): 8106-13, 2008 Jul 10.
Artigo em Inglês | MEDLINE | ID: mdl-18553896

RESUMO

A stochastic model for the interpretation of the emission fluorescence of 4-( N, N-dimethylamino)benzonitrile (DMABN) is discussed. We proceed by reviewing the stochastic modeling approach ( Polimeno, A. ; Barbon, A. ; Nordio, P. L. ; Rettig, W. J. Phys. Chem. 1994, 98, 12158 ), in which internal degrees of freedom are coupled with an effective solvent relaxation variable. Potential energy surfaces are obtained using a reliable but computationally cost-effective quantum mechanical (QM) approach, and estimates of dissipative parameters are calculated on the basis of direct hydrodynamic arguments. Emission fluorescence is estimated by solving numerically a diffusion/sink/source equation for the stationary population of excited state and compared to emission fluorescence of DMABN measured experimentally.

17.
J Chem Phys ; 128(15): 154505, 2008 Apr 21.
Artigo em Inglês | MEDLINE | ID: mdl-18433233

RESUMO

We present a study of the translational friction coefficients of spherical and ellipsoidal probes in nematic liquid crystalline fluids, based on the numerical treatment of Leslie-Ericksen equations [Q. J. Mech. Appl. Math. 19, 357 (1966); Adv. Liq. Cryst. 4, (1979); Trans. Soc. Rheol. 5, 23 (1961); Adv. Liq. Cryst. 2, 233 (1976)] for incompressible nematic fluids. Simulations of director dynamics in a local environment surrounding the moving probe are presented, and the dependence of translational diffusion on liquid crystal viscoelastic parameters is discussed. The time evolution of the director field is studied in the presence of an orienting magnetic field in two characteristic situations: Directors of motion parallel and perpendicular with respect to the field. In the particular case under investigation, a detailed analysis is given for the case of spherical, prolate, and oblate ellipsoidal probes in rectilinear motion in nematic (4-methoxibenzylidene-4'-n-butylaniline), together with a comparison with other nematogens, namely, 4,4'-dimethoxuazoxy benzene and (4'-n-pentyl-4-cyanobiphenil). A discussion of the general methodology presented in this work is given for the case of colloidal dispersions in nematic liquid crystals, which are considered as model systems of dispersions of particles in host media with anisotropic physical properties.

18.
J Am Chem Soc ; 129(36): 11248-58, 2007 Sep 12.
Artigo em Inglês | MEDLINE | ID: mdl-17705490

RESUMO

In this work we present an effective and flexible computational approach, which is the result of an ongoing development in our groups, allowing the complete a priori simulation of the ESR spectra of complex systems in solution. The usefulness and reliability of the method are demonstrated on the very demanding playground represented by the tuning of the equilibrium between 3(10)- and alpha-helices of polypeptides by different solvents. The starting point is the good agreement between computed and X-ray diffraction structures for the 3(10)-helix adopted by the double spin-labelled heptapeptide Fmoc-(Aib-Aib-TOAC)2-Aib-OMe. Next, density functional computations, including dispersion interactions and bulk solvent effects, suggest another energy minimum corresponding to an alpha-helix in polar solvents, which, eventually, becomes the most stable structure. Computation of magnetic and diffusion tensors provides the basic ingredients for the building of complete spectra by methods rooted in the Stochastic Liouville Equation (SLE). The remarkable agreement between computed and experimental spectra at different temperatures allowed us to identify helical structures in the various solvents. The generality of the computational strategy and its implementation in effective and user-friendly computer codes pave the route toward systematic applications in the field of biomolecules and other complex systems.


Assuntos
Simulação por Computador , Peptídeos/química , Marcadores de Spin , Modelos Moleculares , Estrutura Secundária de Proteína
19.
J Phys Chem B ; 111(10): 2668-74, 2007 Mar 15.
Artigo em Inglês | MEDLINE | ID: mdl-17311450

RESUMO

In this work we address the interpretation, via an ab initio integrated computational approach, of the CW-ESR spectra of the double spin labeled, 310-helical, peptide Fmoc-(Aib-Aib-TOAC)2-Aib-OMe dissolved in acetonitrile. Our approach is based on the determination of geometric and local magnetic parameters of the heptapeptide by quantum mechanical density functional calculations taking into account solvent and, when needed, vibrational averaging contributions. The system is then described by a stochastic Liouville equation for the two electron spins interacting with each other and with two 14N nuclear spins, in the presence of diffusive rotational dynamics. Parametrization of the diffusion rotational tensor is provided by a hydrodynamic model. CW-ESR spectra are simulated with minimal resorting to fitting procedures, proving that the combination of sensitive ESR spectroscopy and sophisticated modeling can be highly helpful in providing 3D structural and dynamic information on molecular systems.


Assuntos
Acetonitrilos , Modelos Moleculares , Oligopeptídeos/química , Marcadores de Spin , Simulação por Computador , Espectroscopia de Ressonância de Spin Eletrônica , Solventes , Processos Estocásticos
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