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1.
J Comput Chem ; 44(15): 1446-1453, 2023 Jun 05.
Article in English | MEDLINE | ID: mdl-36916825

ABSTRACT

The intrinsic ability of clathrate hydrates to encage gaseous molecules is explored. Encapsulation ability depends on the cavity size and the type of guest gaseous species in addition to the physical parameters, temperature and pressure. Here we have reported the structure, stability and nature of interaction in dissimilar guest occupied sH hydrate cavity. Diatomic gas molecules and small polyatomic hydrocarbons are considered as guests. The irregular icosahedron (512 68 ) cavity of sH hydrate is the host. Different thermodynamic parameters for the guest molecules encapsulation were calculated using three different hybrid DFT functionals, B3LYP, M05-2X, M06, and moreover using dispersion correction (PBE0-D3). With the consideration of large H-bonded systems the 6-31G* and cc-pVTZ basis sets were used for two set of computations. To disclose the nature of interaction between the host-guest systems as well as the interaction between the guest molecules inside the host the non-covalent interaction (NCI) indices and energy decomposition analysis (EDA) were done. Impact of host-guest and guest-guest interactions are discussed.

2.
J Phys Chem A ; 127(12): 2671-2687, 2023 Mar 30.
Article in English | MEDLINE | ID: mdl-36921095

ABSTRACT

Through molecular mechanics using the force field along with the quantum dynamical aspect of mechanically interlocked compounds, rotaxanes (defined as macromolecular rings that are threaded on a dumbbell-shaped axle molecule) are investigated with advanced quantum mechanical methods, including the atom-centered density matrix propagation simulation technique, at different temperatures like 300, 500, 700, 900, 2000, and 2500 K for 1.2 ps. Ab initio molecular dynamics simulation is carried out. In addition to, we investigate the noncovalent interaction present in the rotaxane compound 2R-D-2PF6 with the help of reduced density gradient, average reduced density gradient, density overlap region indicator, and interaction region indicator as well as Hirshfeld surface analyses. Furthermore, the stability of 2R-D-2PF6 at room temperature and higher temperatures is elucidated by analyzing the thermal fluctuation index through a dynamic process. In order to check the optical behavior of our selected rotaxane compound, an evaluation of the electronic dipole moment, static and frequency-dependent average polarizability, and first- and second-order hyperpolarizability is carried out. The rotaxane compound shows very promising linear and nonlinear optical responses, which indicates its utility as a very good optical material. The calculation of the time-dependent density-functional theory highlights the broad absorption band of rotaxane spanning the UV-visible domain. Therefore, we also unravel that this can tap into solar radiation or harnessing of solar energy.

3.
J Phys Chem A ; 125(49): 10514-10523, 2021 Dec 16.
Article in English | MEDLINE | ID: mdl-34747606

ABSTRACT

Recently, astronomically important silaisocyanoacetylene (HCCNSi) possessing a large dipole moment has been detected for the first time with the help of crossed molecular beam experiments. Quantum chemical computations at higher levels of theory have also been performed to characterize the transient species. In this study, we have analyzed the equilibrium geometry, stability, reactivity, and energetics as well as the nature of bonding in the noble gas (Ng) inserted HCCNSi compound. We have also considered its F analogue to understand the influence of the most electronegative atom in the compound. Metastable behavior of the XNgNSi compounds (X = HCC, F; Ng = Kr-Rn) is examined by calculating thermochemical parameters like free energy change (ΔG) and zero-point-energy-corrected dissociation energy (D0) at 298 K for all possible two-body (2B) and three-body (3B) (both neutral as well as ionic) dissociation channels using coupled-cluster theory [CCSD(T)] in addition to density functional theory (DFT) as well as second order Møller-Plesset perturbation theory (MP2). The set of predicted compounds is found to be endergonic in nature, having high positive free energy change suggesting the thermochemical stability of the compounds except for the 2B Ng-release paths. Though thermodynamically feasible, they are kinetically protected with very high activation free energy barriers. Interestingly, the release of Ng from the parent moiety XNgNSi produces the XSiN isomer, by 180° flipping of the NSi moiety. This can also be seen in the dynamical simulation carried out with the help of atom-centered density matrix propagation (ADMP) technique at 2000K for 1 ps. The bonding in Ng-C, Ng-F, and Ng-N bonds of the studied compounds is analyzed and described with the aid of natural bond orbital (NBO), topological parameters computed using atoms-in-molecules theory (AIM), energy decomposition analysis (EDA), and adaptive natural density partitioning (AdNDP) methods. The natural charge distribution on the constituent atoms suggests that the compounds can be partitioned into both ways of representations, viz., neutral radical as well as ionic fragments. Lastly, the reactivity of the compounds is scrutinized using certain reactivity descriptors calculated within the domain of conceptual density functional theory (CDFT).

4.
Phys Chem Chem Phys ; 22(47): 27476-27495, 2020 Dec 16.
Article in English | MEDLINE | ID: mdl-33216081

ABSTRACT

Although the toxicity of beryllium compounds causes impediments in experiments involving them, beryllium chemistry has seen a recent upsurge of interest and considerable progress. Computations play a very important complementary role in analyzing the structure, stability and bonding of these compounds. In this perspective article, we highlighted our contribution to beryllium chemistry which is either completely through theoretical results or sometimes supported by experimental findings. It starts with the smallest 2π aromatic system, Be32-, which also exhibits rare bond-stretch isomerism. Furthermore, its reactivity towards different transformations is mentioned. Because of the ability of beryllium to attain a high ionic potential, the beryllium center in an appropriate situation can act as an excellent Lewis acid which is utilized to bind noble gas (Ng) atoms, carbon monoxide and dinitrogen through donor-acceptor types of interactions. We made several efforts to have strong Ng-Be bonds which led us to NgBeNCN that is recorded to have the strongest Ng-Be bond among the neutral Ng-Be complexes reported so far. Significant dinitrogen activation was also achieved in (NN)2Be(η2-N2) and OCBeNN complexes. In the latter case, a complete cleavage of the N-N bond producing the most stable NBeNCO molecule has occurred. We also found viable M2(NHBMe)2 (M = Be, Mg) complexes having unusual bonding where the interacting fragments are best described as the neutral M2 and (NHBMe)2 but M2 still possesses a single bond. We finally discussed the complex comprising an unusual Be(i) oxidation state, [BeI(cAACAr)2]+˙ and di-ortho-beryllated carbodiphosphorane exhibiting Be⇇C double dative bonds.

5.
Bioorg Med Chem ; 28(24): 115819, 2020 12 15.
Article in English | MEDLINE | ID: mdl-33120078

ABSTRACT

The exploitation of GLU988 and LYS903 residues in PARP1 as targets to design isoquinolinone (I & II) and naphthyridinone (III) analogues is described. Compounds of structure I have good biochemical and cellular potency but suffered from inferior PK. Constraining the linear propylene linker of structure I into a cyclopentene ring (II) offered improved PK parameters, while maintaining potency for PARP1. Finally, to avoid potential issues that may arise from the presence of an anilinic moiety, the nitrogen substituent on the isoquinolinone ring was incorporated as part of the bicyclic ring. This afforded a naphthyridinone scaffold, as shown in structure III. Further optimization of naphthyridinone series led to identification of a novel and highly potent PARP1 inhibitor 34, which was further characterized as preclinical candidate molecule. Compound 34 is orally bioavailable and displayed favorable pharmacokinetic (PK) properties. Compound 34 demonstrated remarkable antitumor efficacy both as a single-agent as well as in combination with chemotherapeutic agents in the BRCA1 mutant MDA-MB-436 breast cancer xenograft model. Additionally, compound 34 also potentiated the effect of agents such as temozolomide in breast cancer, pancreatic cancer and Ewing's sarcoma models.


Subject(s)
Antineoplastic Agents/chemistry , Naphthyridines/chemistry , Poly (ADP-Ribose) Polymerase-1/antagonists & inhibitors , Poly(ADP-ribose) Polymerase Inhibitors/chemistry , Quinolones/chemistry , Animals , Antineoplastic Agents/metabolism , Antineoplastic Agents/pharmacology , Antineoplastic Agents/therapeutic use , Binding Sites , Cell Line, Tumor , Cell Survival/drug effects , Half-Life , Humans , Mice , Mice, Inbred BALB C , Molecular Docking Simulation , Naphthyridines/metabolism , Neoplasms/drug therapy , Neoplasms/pathology , Poly (ADP-Ribose) Polymerase-1/metabolism , Poly(ADP-ribose) Polymerase Inhibitors/metabolism , Poly(ADP-ribose) Polymerase Inhibitors/pharmacology , Poly(ADP-ribose) Polymerase Inhibitors/therapeutic use , Quinolones/metabolism , Structure-Activity Relationship , Transplantation, Heterologous
6.
J Comput Chem ; 41(28): 2398-2405, 2020 Oct 30.
Article in English | MEDLINE | ID: mdl-32827169

ABSTRACT

The effect of substitution in the dodecahedrane (C20 H20 ) cage on bonding in the confined He dimer is analyzed. The HeHe distances inside the halogenated dodecahedrane C20 X20 (X = FBr) cages are found to be less than half of that in the free He dimer. Comparing the equilibrium structure of He2 @C20 H20 with He2 @C20 X20 at ωB97XD/def2-TZVPP level, it is found that the He-He distances are relatively larger in the latter cases indicating the influence of halogen groups on the interaction between the cage and the trapped He pair. The viability of the He2 @C20 X20 complexes is reflected in the presence of a very high activation energy barrier against the thermochemically feasible dissociation process producing free He2 and C20 X20 . Quantum theory of atoms in molecules (QTAIM) approach reveals a partial covalent interaction between He pair.

7.
ACS Appl Mater Interfaces ; 12(17): 19727-19736, 2020 Apr 29.
Article in English | MEDLINE | ID: mdl-32233358

ABSTRACT

We have developed low-voltage (<2 V) flexible organic field-effect transistors (OFETs) with high carrier mobility using gelatin as a moisture-induced ionic gate dielectric system. Ionic concentration in the gelatin layer depends on the relative humidity condition during the measurement. The capacitance of the dielectric layer used for the calculation of field-effect carrier mobility for the OFETs crucially depends on the frequency at which the capacitance was measured. The results of frequency-dependent gate capacitance together with the anomalous bias-stress effect have been used to determine the exact frequency at which the carrier mobility should be calculated. The observed carrier mobility of the devices is 0.33 cm2/Vs with the capacitance measured at frequency 20 mHz. It can be overestimated to 14 cm2/Vs with the capacitance measured at 100 kHz. The devices can be used as highly sensitive humidity sensors. About three orders of magnitude variation in device current have been observed on the changes in relative humidity (RH) levels from 10 to 80%. The devices show a fast response with a response and recovery times of ∼100 and ∼110 ms, respectively. The devices are flexible up to a 5 mm bending radius.

8.
J Med Chem ; 63(3): 944-960, 2020 02 13.
Article in English | MEDLINE | ID: mdl-31755711

ABSTRACT

The discovery of a series of thiophenephenylsulfonamides as positive allosteric modulators (PAM) of α7 nicotinic acetylcholine receptor (α7 nAChR) is described. Optimization of this series led to identification of compound 28, a novel PAM of α7 nicotinic acetylcholine receptor (α7 nAChR). Compound 28 showed good in vitro potency, with pharmacokinetic profile across species with excellent brain penetration and residence time. Compound 28 robustly reversed the cognitive deficits in episodic/working memory in both time-delay and scopolamine-induced amnesia paradigms in the novel object and social recognition tasks, at very low dose levels. Additionally, compound 28 has shown excellent safety profile in phase 1 clinical trials and is being evaluated for efficacy and safety as monotherapy in patients with mild to moderate Alzheimer's disease.


Subject(s)
Drug Discovery , Nicotinic Agonists/pharmacology , Nootropic Agents/pharmacology , Sulfonamides/pharmacology , Thiophenes/pharmacology , alpha7 Nicotinic Acetylcholine Receptor/agonists , Alzheimer Disease/drug therapy , Animals , Brain/metabolism , Clinical Trials as Topic , Drug Stability , Humans , Male , Molecular Structure , Nicotinic Agonists/chemical synthesis , Nicotinic Agonists/pharmacokinetics , Nootropic Agents/chemical synthesis , Nootropic Agents/pharmacokinetics , Rats, Sprague-Dawley , Rats, Wistar , Structure-Activity Relationship , Sulfonamides/chemical synthesis , Sulfonamides/pharmacokinetics , Thiophenes/chemical synthesis , Thiophenes/pharmacokinetics
9.
Molecules ; 24(16)2019 Aug 13.
Article in English | MEDLINE | ID: mdl-31412650

ABSTRACT

Noble gases (Ngs) are the least reactive elements in the periodic table towards chemical bond formation when compared with other elements because of their completely filled valence electronic configuration. Very often, extreme conditions like low temperatures, high pressures and very reactive reagents are required for them to form meaningful chemical bonds with other elements. In this personal account, we summarize our works to date on Ng complexes where we attempted to theoretically predict viable Ng complexes having strong bonding to synthesize them under close to ambient conditions. Our works cover three different types of Ng complexes, viz., non-insertion of NgXY type, insertion of XNgY type and Ng encapsulated cage complexes where X and Y can represent any atom or group of atoms. While the first category of Ng complexes can be thermochemically stable at a certain temperature depending on the strength of the Ng-X bond, the latter two categories are kinetically stable, and therefore, their viability and the corresponding conditions depend on the size of the activation barrier associated with the release of Ng atom(s). Our major focus was devoted to understand the bonding situation in these complexes by employing the available state-of-the-art theoretic tools like natural bond orbital, electron density, and energy decomposition analyses in combination with the natural orbital for chemical valence theory. Intriguingly, these three types of complexes represent three different types of bonding scenarios. In NgXY, the strength of the donor-acceptor Ng→XY interaction depends on the polarizing power of binding the X center to draw the rather rigid electron density of Ng towards itself, and sometimes involvement of such orbitals becomes large enough, particularly for heavier Ng elements, to consider them as covalent bonds. On the other hand, in most of the XNgY cases, Ng forms an electron-shared covalent bond with X while interacting electrostatically with Y representing itself as [XNg]+Y-. Nevertheless, in some of the rare cases like NCNgNSi, both the C-Ng and Ng-N bonds can be represented as electron-shared covalent bonds. On the other hand, a cage host is an excellent moiety to examine the limits that can be pushed to attain bonding between two Ng atoms (even for He) at high pressure. The confinement effect by a small cage-like B12N12 can even induce some covalent interaction within two He atoms in the He2@B12N12 complex.


Subject(s)
Noble Gases/chemistry , Electrons , Models, Chemical , Models, Molecular , Models, Theoretical
10.
Front Chem ; 7: 485, 2019.
Article in English | MEDLINE | ID: mdl-31355182

ABSTRACT

Particle Swarm Optimization (PSO), a population based technique for stochastic search in a multidimensional space, has so far been employed successfully for solving a variety of optimization problems including many multifaceted problems, where other popular methods like steepest descent, gradient descent, conjugate gradient, Newton method, etc. do not give satisfactory results. Herein, we propose a modified PSO algorithm for unbiased global minima search by integrating with density functional theory which turns out to be superior to the other evolutionary methods such as simulated annealing, basin hopping and genetic algorithm. The present PSO code combines evolutionary algorithm with a variational optimization technique through interfacing of PSO with the Gaussian software, where the latter is used for single point energy calculation in each iteration step of PSO. Pure carbon and carbon containing systems have been of great interest for several decades due to their important role in the evolution of life as well as wide applications in various research fields. Our study shows how arbitrary and randomly generated small Cn clusters (n = 3-6, 10) can be transformed into the corresponding global minimum structure. The detailed results signify that the proposed technique is quite promising in finding the best global solution for small population size clusters.

11.
Photochem Photobiol Sci ; 18(6): 1359-1372, 2019 Jun 12.
Article in English | MEDLINE | ID: mdl-30916109

ABSTRACT

Literature reports provide ample evidence of the dynamical studies of various fluorophores in different room-temperature ionic liquid (RTIL)-cosolvent mixtures. However, most of the experimental and simulation studies reveal that ∼50% of the spectral relaxation dynamics is fast and cannot be resolved using traditional time correlated single photon counting (TCSPC) measurements. Our group has also investigated the dynamics of a solvatochromic probe coumarin 153 (C153) in a RTIL-cosolvent mixture using a TCSPC setup (S. Sarkar, R. Pramanik, C. Ghatak, P. Setua and N. Sarkar, J. Phys. Chem. B, 2010, 114, 2779-2789). Consequently, a major portion of the solvation dynamics remained undetected and moreover we could not monitor the dynamics beyond 0.4 mole fraction of the cosolvents. Thus in this study, we have rekindled our interest to sufficiently capture the rotational anisotropy and solvation dynamics of C153 beyond 0.4 mole fraction of the cosolvents in the RTIL-cosolvent mixture employing femtosecond fluorescence upconversion measurements. Additionally, we have utilized another RTIL with a higher alkyl chain length and viscosity to obtain a comprehensive and quantitative picture of the role of viscosity on the dynamics of the probe molecule. The most interesting observation of the present work is that the viscosities of different RTIL-cosolvent mixtures can efficiently control the cis-trans isomerization kinetics of the anionic fluorophore merocyanine 540 (MC 540) and the translational diffusion of a hydrophobic probe. The optimization of geometrical structures of [EmimOs]- and [EmimOs]-cosolvent mixtures followed by frequency analyses in both gas and solution phases have been carried out using quantum chemical calculations with the aid of density functional theory (DFT) methods. The computation based on the bond distances, electron densities and non-covalent interactions (NCI) has also been used to investigate the existence of the hydrogen-bond (H-bond). Again to comprehend van der Waals interactions and the conventional hydrogen-bond, the evolution of NCI plots are simulated. Therefore, the detailed experimental and theoretical studies presented in this manuscript lead to the inference that addition of the conventional solvents finely tunes the physicochemical properties of RTILs and broadens their scope of applications in the fields of chemistry and biology.

12.
ChemistryOpen ; 8(2): 173-187, 2019 Feb.
Article in English | MEDLINE | ID: mdl-30740292

ABSTRACT

This Review presents the current status of the noble gas (Ng)-noble metal chemistry, which began in 1977 with the detection of AuNe+ through mass spectroscopy and then grew from 2000 onwards; currently, the field is in a somewhat matured state. On one side, modern quantum chemistry is very effective in providing important insights into the structure, stability, and barrier for the decomposition of Ng compounds and, as a result, a plethora of viable Ng compounds have been predicted. On the other hand. experimental achievement also goes beyond microscopic detection and characterization through spectroscopic techniques and crystal structures at ambient temperature; for example, (AuXe4)2+(Sb2F11 -)2 have also been obtained. The bonding between two noble elements of the periodic table can even reach the covalent limit. The relativistic effect makes gold a very special candidate to form a strong bond with Ng in comparison to copper and silver. Insertion compounds, which are metastable in nature, depending on their kinetic stability, display an even more fascinating bonding situation. The degree of covalency in Ng-M (M=noble metal) bonds of insertion compounds is far larger than that in non-insertion compounds. In fact, in MNgCN (M=Cu, Ag, Au) molecules, the M-Ng and Ng-C bonds might be represented as classical 2c-2e σ bonds. Therefore, noble metals, particularly gold, provide the opportunity for experimental chemists to obtain sufficiently stable complexes with Ng at room temperature in order to characterize them by using experimental techniques and, with the intriguing bonding situation, to explore them with various computational tools from a theoretical perspective. This field is relatively young and, in the coming years, a lot of advancement is expected experimentally as well as theoretically.

13.
Chem Biol Drug Des ; 93(6): 1083-1095, 2019 06.
Article in English | MEDLINE | ID: mdl-30597757

ABSTRACT

QSAR/QSPR/QSTR modeling and chemical grouping approach are presented to provide information on the biological properties of various substituted benzene derivatives. A novel descriptor, viz., the square of electrophilicity index (ω2 ) is proposed to provide a compact correlation between the structure of the compounds and their biological properties which is marginally superior to electrophilicity index (ω) or ω3 in most of the cases, and more or less similar to that obtained from hydrophobicity (or lipophilicity). Besides the straightforward case study, neural networks (NN) are employed to ascertain the robustness of the QSAR model obtained by implementing multiple linear regression (MLR).


Subject(s)
Benzene/toxicity , Electricity , Hydrophobic and Hydrophilic Interactions , Quantitative Structure-Activity Relationship , Animals , Benzene/chemistry , Cyprinidae
14.
J Phys Chem A ; 122(37): 7391-7401, 2018 Sep 20.
Article in English | MEDLINE | ID: mdl-30110546

ABSTRACT

Metal acetylides (MCCH, M = Cu, Ag, Au) were already experimentally detected in molecular form. Herein, we investigate the possibility of noble gas (Ng) insertion within the C-H bond of MCCH and their stability is compared with those of the reported MNgCCH and HCCNgH molecules. Our coupled-cluster-level computations show that MCCNgH (Ng = Kr, Xe, Rn) systems are local minima on the corresponding potential energy surfaces, whereas their lighter analogues do not remain in the chemically bound form. Further, their stability is analyzed with respect to all possible dissociation channels. The most favorable dissociation channel leads to the formation of free Ng and MCCH. However, there exists a high free energy barrier (29.3-46.9 kcal/mol) to hinder the dissociation. The other competitive processes against their stability include two-body and three-body neutral dissociation channels, MCCNgH → MCC + NgH and MCCNgH → MCC + Ng + H, respectively, which are slightly exergonic in nature at 298 K for Ng = Kr, Xe and M = Cu, Ag, and for AuCCKrH. However, the Xe analogues for Cu and Ag and AuCCKrH would be viable at a lower temperature. AuCCNgH (Ng = Kr-Rn) molecules are the best candidates for experimental realization, since they have higher dissociation energy values and higher kinetic protection in the case of feasible dissociation channels compared to the Cu and Ag systems. A detailed bonding analysis indicates that the Ng-H bonds are genuine covalent bonds and there is also a substantial covalent character in Ng-C contacts of these molecules. Moreover, the possibility of insertion of two Xe atoms in AuCCH resulting in AuXeCCXeH and the stability of XeAuXeCCXeH are also tested herein.

15.
Phys Chem Chem Phys ; 20(27): 18491-18502, 2018 Jul 11.
Article in English | MEDLINE | ID: mdl-29947384

ABSTRACT

The internal isomerization, MNC ↔ MCN (M = Cu, Ag, Au), is investigated through quantum chemical computations. CuNC and AgNC are shown to be neither thermochemically nor kinetically stable against transformation to MCN. The free energy barrier (ΔG‡) for AuNC is somewhat considerable (7.1 kcal mol-1), indicating its viability, particularly at low temperature. Further, the Ng inserted analogues, MNgCN (M = Cu, Ag, Au; Ng = Xe, Rn) turn out to be thermochemically stable with respect to all possible dissociation channels but for two two-body dissociation channels, viz., MNgCN → Ng + MCN and MNgCN → Ng + MNC, which are connected to the internal isomerization processes, MNgCN → NgMCN and MNgCN → NgMNC, respectively. However, they are kinetically protected by substantial ΔG‡ values (11.8-15.4 kcal mol-1 for Cu, 9.8-13.6 kcal mol-1 for Ag, and 19.7-24.7 kcal mol-1 for Au). The pathways for such internal conversion are explored in detail. A thorough inspection of the bonding situation of the studied molecules, employing natural bond order, electron density, adaptive natural density partitioning, and energy decomposition analyses indicates that the M-Ng bonds in MNgCN and Ng-C bonds in AuNgCN can be represented as an electron-shared covalent bond. For the other Ng-C bonds, although an ionic description is better suited, the degree of covalent character is also substantial therein.

16.
Chemistry ; 24(12): 2879-2887, 2018 Feb 26.
Article in English | MEDLINE | ID: mdl-29194873

ABSTRACT

Although the noble gas (Ng) compounds with either Ng-C or Ng-N bonds have been reported in the literature, compounds containing both bonds are not known. The first set of systems having a C-Ng-N bonding unit is predicted herein through the analysis of stability and bonding in the NCNgNSi (Ng=Kr-Rn) family. While the Xe and Rn inserted analogues are thermochemically stable with respect to all dissociation channels, but for the one producing CNSiN and free Ng, NCKrNSi has another additional three-body dissociation channel, NCKrNSi→CN+Kr+NSi, which is exergonic by -9.8 kcal mol-1 at 298 K. This latter dissociation can be hindered by lowering the temperature. Moreover, the NCNgNSi→Ng+CNSiN dissociation is also kinetically prohibited by a quite high free energy barrier ranging from 25.2 to 39.3 kcal mol-1 , with a gradual increase in going from Kr to Rn. Therefore, these compounds are appropriate candidates for experimental realization. A detailed bonding analysis by employing natural bond orbital, electron density, energy decomposition, and adaptive natural density partitioning analyses indicates that both Ng-N and C-Ng bonds in the title compounds are covalent in nature. In fact, the latter analysis indicates the presence of delocalized 3c-3e σ-bond within the C-Ng-N moiety and a totally delocalized 5c-2e σ-bond in these compounds. This is an unprecedented bonding characteristic in the sense that the bonding pattern in Ng inserted compounds is generally represented as the presence of covalent bond in one side of Ng, and the ionic interaction in the other side. Further, the dissociation of Ng from NCNgNSi facilitates the formation of a higher energy isomer of NCNSi, CNSiN, which cannot be formed from bare NCNSi as such, because of the very high free energy barrier associated with the isomeric transformation. Therefore, in the presence of Ng atoms it might be possible to detect the high energy isomer.

17.
J Phys Chem A ; 121(34): 6491-6499, 2017 Aug 31.
Article in English | MEDLINE | ID: mdl-28762737

ABSTRACT

Although Ng-M (M = Cu, Ag, Au; Ng = noble gas) and Ng-C bonds are known to exist in different viable species, we report here a series of systems with formula MNgCCH (Ng = Xe, Rn) in which both bonds coexist. These compounds possess reasonably high kinetic stability (free energy barrier, ΔG‡ of 14.0-34.8 kcal/mol) along an exergonic isomerization channel, MNgCCH → NgMCCH. For a given M, the ΔG‡ associated with this channel increases from Xe to Rn, whereas for a given Ng, it increases along Ag < Cu < Au. No other possible dissociation channel is feasible at standard condition, except for the Ag-Xe analogue, where one three-body neutral dissociation channel, AgXeCCH → Ag + Xe + CCH, is slightly exergonic by 2.4 kcal/mol. Examination of the thermochemical stability of the Ng-M bonds in noninserted compounds against the dissociation, NgMCCH → Ng + MCCH reveals that Kr-Rn bound Cu and Au analogues, and Xe and Rn bound Ag analogues would be viable at 298 K. The natural bond order analysis indicates the formation of M-Ng covalent bond and Ng-C ionic bonds in these compounds having an ionic representation of (MNg)+(CCH)-. Energy decomposition analysis reveals a significant contribution of the electrostatic term in the M-Ng covalent bonds.

18.
Phys Chem Chem Phys ; 19(36): 24448-24452, 2017 Sep 20.
Article in English | MEDLINE | ID: mdl-28853457

ABSTRACT

The selectivity of cucurbit[7]uril (CB[7]) towards adsorbing a series of 14 molecules encompassing four hydrocarbons (C2H2, C2H4, C2H6, and CH4), diatomic molecules of halogens (F2 and Cl2), nitrogen oxides (NO2 and NO), carbon oxides (CO2 and CO), SO2, H2S, N2, and H2 is explored via a density functional theory based study. CB[7] is noted to have high selectivity towards adsorbing SO2 over the other considered molecules, highlighting its probable utility to separate SO2 from flue gas or other gas mixtures containing these molecules. The nature of bonding is deciphered via the computations of non-covalent interaction indices and energy decomposition analysis. Although in all cases the dispersion interaction turns out to be the most dominating contributor in stabilizing these complexes, the electrostatic contribution is also considerable. In fact, the combined effect of these two energy terms in SO2@CB[7] is responsible for the obtained selectivity.

19.
J Phys Chem A ; 121(19): 3803-3817, 2017 May 18.
Article in English | MEDLINE | ID: mdl-28448147

ABSTRACT

The viability of a series of small gas molecules (H2, N2, CO, CO2, H2O, H2S, C2H2, CH4, CH3Cl, C2H4, and C2H6) bound [M-(bipy)]+ (bipy = bipyridyl; M = Cu, Ag, Au) complexes is investigated at the PBE0/cc-pVTZ/cc-pVTZ-PP level with a special emphasis on the possible bond activation within the bound ligands. While the bond dissociation energy, enthalpy change, and free energy change are computed to show the stability of the complexes with respect to the dissociation into [M-(bipy)]+ and free gas molecule (L), natural bond orbital, electron density, and energy decomposition analyses in conjunction with natural orbitals for chemical valence are carried out to characterize the nature of L-M bonds. For a given L, the L binding ability is the highest for Au followed by Cu and Ag complexes, except for quite loosely bound CO2. For all ligand cases, the dissociation processes from the respective bound complexes are endergonic in nature at room temperature, except for the H2-, CH4-, and C2H6-bound Ag complexes and CO2-bound Ag and Au complexes. The interaction between L and M centers is supported by orbital and ionic interactions with latter being more dominant over the former. The delocalization index and local energy density values support the covalent character in L-M bonds in most of the cases. These M centers can act as a mild bond activation agent for L, Au being the best candidate in this series for this purpose. Particularly, the H-H bond in H2, C═C bond in C2H4, C≡C bond in C2H2, and C-H bonds in CH4 and C2H6 (the last two are for Au) are elongated along with a significant red-shift in the corresponding stretching frequency, compared to those in free molecules. These can be explained by the significant π-back-donation populating the lowest unoccupied antibonding molecular orbital of L in these complexes.

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