Conformational properties of 1-methyl-1-germacyclohexane: low-temperature NMR and quantum chemical calculations

The conformational preference of the methyl group of 1-methyl-1-germacyclohexane was studied experimentally in solution (low-temperature ¹³C NMR) and by quantum chemical calculations (CCSD(T), MP2 and DFT methods). The NMR experiment resulted in an axial/equatorial ratio of 44/56 mol% at 114 K corresponding to an A value (A = G _ax ? G _eq) of 0.06 kcal mol^?1. An average value for ΔG _e→a ^#  = 5.0 ± 0.1 kcal mol^?1 was obtained for the temperature range 106–134 K. The experimental results are very well reproduced by the calculations. CCSD(T)/CBS calculations + thermal corrections resulted in an A value of 0.02 kcal mol^?1, whereas a ΔE value of ?0.01 kcal mol^?1 at 0 K was obtained.     

Unexpected conformational properties of 1-trifluoromethyl-1-silacyclohexane, C5H10SiHCF3: gas electron diffraction, low-temperature NMR spectropic studies, and quantum chemical calculations

The molecular structure of axial and equatorial conformers of 1-trifluoromethyl-1-silacyclohexane, (C5H10SiHCF3), as well as the thermodynamic equilibrium between these species was investigated by means of gas electron diffraction (GED), dynamic nuclear magnetic resonance (DNMR) spectroscopy, and quantum chemical calculations (B3LYP, MP2, and CBS-QB3). According to GED, the compound exists as a mixture of two Cs symmetry conformers possessing the chair conformation of the six-membered ring and differing in the axial or equatorial position of the CF3 group (axial=58(12) mol%/equatorial=42(12) mol%) at T=293 K. This result is in a good agreement with the theoretical prediction. This is, however, in sharp contrast to the conformational properties of the cyclohexane analogue. The main structural feature for both conformers is the unusually long exocyclic bond length Si--C 1.934(10) A. A low-temperature 19F NMR experiment results in an axial/equatorial ratio of 17(2) mol%:83(2) mol% at 113 K and a DeltaG (not equal) of 5.5(2) kcal mol-1. CBS-QB3 calculations in the gas-phase and solvation effect calculations using the PCM(B3LYP/6-311G*) and IPCM(B3LYP/6-311G*) models were applied to estimate the axial/equatorial ratio in the 100-300 K temperature range, which showed excellent agreement with the experimental results. The minimum energy pathways for the chair-to-chair inversion of trifluoromethylsilacyclohexane and methylsilacyclohexane were also calculated using the STQN(Path) method.     

Molecular structure and conformations of benzenesulfonamide: gas electron diffraction and quantum chemical calculations

The molecular structure and conformational properties of benzenesulfonamide, C6H5SO2NH2, were studied by gas electron diffraction (GED) and quantum chemical methods (MP2 and B3LYP with different basis sets). The calculations predict the presence of two stable conformers with the NH2 group eclipsing or staggering the SO2 group. The eclipsed form is predicted to be favored by about 0.5 kcal/mol. According to GED, the saturated vapor over solid benzenesulfonamide at a temperature of 150(5) degrees C consists of the eclipsed conformer. The GED intensities, however, possess a very low sensitivity toward the vapor composition, and contributions of the anti conformer of up to 75% (at the 0.05 level of significance) or up to 55% (at the 0.25 level of significance) cannot be excluded. The molecule possesses C(sS) symmetry with the S-N bond perpendicular to the ring plane.     

Molecular structure of carphedon as studied by gas electron diffraction and quantum chemical calculations

The gas-phase structure and conformational properties of carphedon (C₁₂H₁₄N₂O₂, phenylpiracetam, 2-oxo-4-phenyl-1-pyrrolidineacetamide) have been determined by gas electron diffraction (GED) and quantum chemical calculations (B3LYP and MP2 with 6-31G and cc-pVDZ basis sets). Since quantum chemical calculations demonstrate that the orientation of the acetamide group is fixed by a strong intramolecular N–H(amide)···O(pyrrolidone) hydrogen bond, the number of possible conformers is reduced considerably. Depending on the conformation of the pyrrolidine ring, envelope with out-of-plane C4 atom and acetamide group on the same side of the plane (“+”) or envelope with C4 and acetamide group on opposite sides (“?”), and on the orientation of the phenyl ring, axial (Ax), or equatorial (Eq), four relevant conformations, Ax?, Ax+, Eq?, and Eq+, exist. According to both quantum chemical methods (B3LYP and MP2 with cc-pVDZ basis sets) these four conformers differ by less than 2 kcal/mol in free energies. However, the two methods predict different relative free energies. The GED data were analyzed with different models. With a single-conformer model the best fit of the experimental GED intensities (agreement factor R _f = 4 %) is obtained with the Ax+ conformer. Using a two-conformer model the fit improves considerable for a 50(11):50(11) mixture of Ax? and Eq+ conformers (R _f = 2.7 %). No further improvement is obtained with a three-conformer model and large uncertainties for relative contributions occur. The geometric parameters of gaseous carphedon are compared with those in the crystal phase, where two molecules are connected by two intermolecular N–H···O hydrogen bonds, and with gas-phase values of piracetam.     

1-Methylthio-1-phenyl-1-silacyclohexane: Synthesis,conformational preferences in gas and solution by GED,NMR and theoretical calculations

1-Methylthio-1-phenyl-1-silacyclohexane 1, the first silacyclohexane with the sulfur atom at silicon, was synthesized and its molecular structure and conformational preferences studied by gas-phase electron diffraction (GED) and low temperature ¹³C and ²⁹Si NMR spectroscopy (LT NMR). Quantum-chemical calculations were carried out both for the isolated species and solvate complexes in gas and in polar medium. The predominance of the 1-MeS_axPh_eq conformer in gas phase (1-Ph_eq:1-Ph_ax = 55:45, ΔG° = 0.13 kcal/mol) determined from GED is consistent with that measured in the freon solution by LT NMR (1-Ph_eq:1-Ph_ax = 65:35, ΔG° = 0.12 kcal/mol), the experimentally measured ratios being close to that estimated by quantum chemical calculations at both the DFT and MP2 levels of theory.     

Structure and conformational properties of diacetyl sulfide in the gaseous and condensed phases explored by gas electron diffraction, single-crystal X-ray diffraction, vibrational spectroscopy, and quantum chemical calculations.

On the evidence of the electron diffraction pattern of the vapor, of the IR spectrum of the matrix-isolated molecule, and of quantum chemical calculations, the diacetyl sulfide molecule, CH3C(O)SC(O)CH3, adopts a planar heavy-atom skeleton with the [sp,ap] conformation. Other conformations contribute little (<1%) to the population of the gaseous molecules at normal temperatures. Salient structural parameters (r(a) structure, distances (in A), angles (in deg), and 3sigma uncertainties in parentheses) were as follows: r(C=O) 1.198(2)/1.196(2), r(C-S) 1.787(3)/1.808(3), r(C-C) 1.483(4)/1.472(4), angleC-S-C 108.8(9), angleS-C=O 125.7(6)/115.1(6), and angleS-C-C 121.1(7)/111.2(7). The structure of a single crystal at 150 K [monoclinic, P2(1)/n, a = 4.2230(7) A, b = 11.2105(17) A, c = 12.332(2) A, beta = 94.544(16) degrees] also reveals planar molecules with the same conformation and dimensions close to those of the gaseous molecule. Changes in the vibrational spectra of the compound accompanying the transition from the vapor to the condensed phases are attributed not to the presence of more than one conformer but to differences in the local environment of the two carbonyl groups. The properties deduced are compared with those of other compounds of the type CH3C(O)XC(O)CH3 (X = CH2, NH, or O).     

Molecular structure and conformations of para-methylbenzene sulfonamide and ortho-methylbenzene sulfonamide: gas electron diffraction and quantum chemical calculations study

The molecular structure and conformational properties of para-methylbenzene sulfonamide (4-MBSA) and ortho-methylbenzene sulfonamide (2-MBSA) have been studied by gas electron diffraction (GED) and quantum chemical methods (B3LYP/6-311+G** and MP2/6-31G**). Quantum chemical calculations predict the existence of two conformers for 4-MBSA with the S-N bond perpendicular to the benzene plane and the NH2 group either eclipsing or staggering the S-O bonds of the SO2 group. Both conformers possess CS symmetry. The eclipsed form is predicted to be favored by DeltaE = 0.63 kcal/mol (B3LYP) or 1.00 kcal/mol (MP2). According to the calculations, the S-N bond in 2-MBSA can possess planar direction opposite the methyl group (phi(C2C1SN) = 180 degrees ) or nonplanar direction (phi(C2C1SN) approximately 60 degrees ). In both cases, the NH2 group can adopt eclipsed or staggered orientation, resulting in a total of four stable conformers. The nonplanar eclipsed conformer (C1 symmetry) and the planar eclipsed form (CS symmetry) are predicted to be favored. According to the GED analysis, the saturated vapor over solid 4-MBSA at T = 151(3) degrees C consists as mixture of the eclipsed (78(19) %) and staggered (22(19) %) forms. The saturated vapor over solid 2-MBSA at T = 157(3) degrees C consists as a mixture of the nonplanar eclipsed (69(11) %) and planar eclipsed (31(11) %) forms.     

The influence of steric hindrance on conformation properties and molecular structure of 2,4,6-trinitrobenzenesulfonic acid: gas electron diffraction and quantum chemical calculations

A combined gas-phase electron diffraction and quantum chemical (B3LYP/cc-pVTZ, MP2/cc-pVDZ) study of molecular structure of 2,4,6-trinitrobenzenesulfonic acid (2,4,6-tri-NBSA) was carried out. Quantum chemical calculations showed that 2,4,6-tri-NBSA possesses six conformers, which form three pairs of enantiomers with the relative energy of 0, 4.4/3.9, and 2.5/2.5 kcal/mol. It was experimentally established that at T = 444(5) K a saturated vapor over 2,4,6-tri-NBSA is, predominantly (up to 93 mol.%), represented by a low-energy enantiomers II and II′ characterized by intramolecular hydrogen bond between an H atom of the hydroxyl group and one of the O atoms of the NO₂ group. Experimental internuclear distances for the low-energy enantiomers are (?): r _h1(C–C)_av. = 1.387(4), r _h1(C–S) = 1.811(6), r _h1(S=O)_av. = 1.424(4), r _h1(S–O) = 1.579(4), r _h1(N–O)_av. = 1.214(3), r _h1(C–N)_av. = 1.491(5). Geometry of the conformer II points on existance of strong steric interactions between SO₂OH group and two ortho-nitro groups. Analysis of the orbital interactions between the substituents and benzene ring was carried out. Geometric parameters and energies of transition states between conformers were calculated (B3LYP).     

Molecular structure and conformations of 2,2-di-tert-butyl-1,3-diaza-2-silacyclopentane: gas electron diffraction and quantum chemical calculations

The geometric structure and conformational properties of the saturated five-membered-ring compound 2,2-di-tert-butyl-1,3-diaza-2-silacyclopentane, (t-Bu)(2)Si(NH)(2)(CH(2))(2), was investigated by gas electron diffraction and quantum chemical methods (B3LYP and MP2 with 6-31G basis sets). The compound exists as a mixture of two conformers, both possessing a twist conformation and C(2) symmetry. In the prevailing form (76(6) % at 305 K) the N-H bonds stagger the adjacent CH(2) groups, and in the minor form the N-H bonds eclipse the CH(2) groups. This conformational mixture corresponds to a free energy difference of DeltaG degrees = 0.69(19) kcal/mol. The B3LYP method predicts a preference for the eclipsed conformer. The largest torsion occurs around the C-C bond with tau(NCCN) = 29.2(24) degrees. The degree of puckering in the title compound is considerably smaller than that in silacyclopentane with tau(CCCC) = 49.7(14) degrees. This has been rationalized by larger angle strain in the title compound.     

Synthesis,conformational preferences in gas and solution,and molecular gear rotation in 1-(dimethylamino)-1-phenyl-1-silacyclohexane by gas phase electron diffraction (GED), LT NMR and theoretical calculations

1-(Dimethylamino)-1-phenyl-1-silacyclohexane 1, was synthesized, and its molecular structure and conformational properties studied by gas-phase electron diffraction (GED), low temperature ¹³C NMR spectroscopy and quantum-chemical calculations. The predominance of the 1-Ph_ax conformer (1-Ph_eq:1-Ph_ax ratio of 20:80%, ΔG°(317?K)?=??0.87?kcal/mol) in the gas phase is close to the theoretically estimated conformational equilibrium. In solution, low temperature NMR spectroscopy showed analyzable decoalescence of C_ipso and C(1,5) carbon signals in ¹³C NMR spectra at 103?K. Opposite to the gas state in the freon solution employed (CD₂Cl₂/CHFCl₂/CHFCl₂?=?1:1:3), which is still liquid at 100?K, the 1-Ph_eq conformer was found to be the preferred one [(1-Ph_eq: 1-Ph_ax?=?77%: 23%, K?=?77/23?=?2.8; ?ΔG°?=??RT ln K (at 103?K)?=?0.44?±?0.1?kcal/mol]. When comparing 1 with 1-phenyl-1-(X)silacylohexanes (X?=?H, Me, OMe, F, Cl), studied so far, the trend of predominance of the Ph_ax conformer in the gas phase and of the Ph_eq conformer in solution is confirmed.     

Structural and thermochemical studies of pyrrolidine borane and piperidine borane by gas electron diffraction and quantum chemical calculations

Structural Chemistry - The gaseous structures, thermochemical properties and dehydrogenation reaction energy profiles of the borane complexes of pyrrolidine and piperidine have been investigated...     

Internal rotation and intramolecular hydrogen bonding in thiosalicylamide: gas phase electron diffraction study supported by quantum chemical calculations

Structural Chemistry - The molecular structure of thiosalicylamide (2-hydroxythiobenzamide) was investigated in the gas phase at 401&nbsp;K by means of gas electron diffraction (GED) combined...     

Geometrical and electronic structure of LaI3 molecule from the gas electron diffraction data and quantum chemical calculations

The saturated vapor over LaI₃ has been studied using the electron diffraction method with mass-spectral monitoring. It was determined that at a temperature 1142(10) K, along with monomer molecules, dimers are present in the vapor in the quantity of 0.7 mol.%. Effective configuration parameters of LaI₃ molecule were obtained: r _g(La-I) 2.961(6) Å, ∠_g(I-La-I) 116.5(9)°, l(La-I) 0.106(1) Å and l(I…I) 0.412(7) Å. A small deviation of the valence angle ∠_g(I-L-I) from 120° can be totally caused by a contraction effect of the distance r _g(I…I) of LaI₃ molecule with planar equilibrium configuration. The electronic structure of LaI₃ molecule was examined by the B3LYP/SDD method. In terms of the NBO-analysis, the participation of lanthanum 4f-AO in bonding orbitals La-I is noted. It is shown that the NBO-analysis describes the bond La-I in LaI₃ molecule as predominantly ionic one with a noticeable covalence component. The energy of the heterolytic bond breakage E(La-I)_het = 1216 kJ/mole was calculated.     

Conformational properties of penicillins: quantum chemical calculations and molecular dynamics simulations of benzylpenicillin

Herein, we present theoretical results on the conformational properties of benzylpenicillin, which are characterized by means of quantum chemical calculations (MP2/6-31G* and B3LYP/6-31G*) and classical molecular dynamics simulations (5 ns) both in the gas phase and in aqueous solution. In the gas phase, the benzylpenicillin conformer in which the thiazolidine ring has the carboxylate group oriented axially is the most favored one. Both intramolecular CH. O and dispersion interactions contribute to stabilize the axial conformer with respect to the equatorial one. In aqueous solution, a molecular dynamics simulation predicts a relative population of the axial:equatorial conformers of 0.70:0.30 in consonance with NMR experimental data. Overall, the quantum chemical calculations as well as the simulations give insight into substituent effects, the conformational dynamics of benzylpenicillin, the frequency of ring-puckering motions, and the correlation of side chain and ring-puckering motions.     

Tautomeric and conformational properties of acetoacetamide: electron diffraction and quantum chemical study

The tautomeric properties of acetoacetamide, CH3C(O)CH2C(O)NH2, have been investigated by gas electron diffraction (GED) and quantum chemical calculations (B3LYP and MP2 approximations with 6-31G(d,p) and 6-311++G(3df,pd) basis sets). GED results in a mixture of 63(7)% enol tautomer and 37(7)% diketo form at 74(5) degrees C. Only one enol form with the O-H bond adjacent to the methyl group (CH3C(OH)=CHC(O)NH2) and only one diketo conformer (with dihedral angles tau(O=C(CH3)-C-C) = 31.7(7.5) degrees and tau(O=C(NH2)-C(H2)-C(O)) = 130.9(4.5) degrees ) are present. The calculated tautomeric composition varies in a wide range depending on the quantum chemical method and basis set. Only the B3LYP method with small basis sets reproduces the experimental composition correctly.     

Structure and conformational properties of N-pentafluorosulfur(sulfuroxide difluoride imide) SF5N=S(O)F2: vibrational analysis, gas electron diffraction, and quantum chemical calculations

The molecular structure and conformational properties of N-pentafluorosulfur(sulfuroxide difluoride imide), SF5N=S(O)F2, have been studied by vibrational spectroscopy (IR (gas) and Raman (liquid)), by gas electron diffraction (GED), and by quantum chemical calculations (MP2 and B3LYP with (6-31G(d) and 6-311+G(2df) basis sets). According to GED, the prevailing conformer possesses a syn structure (N-SF5 bond synperiplanar with respect to the bisector of the SF2 group). Splitting of the symmetric N=S=O stretching vibration in gas and liquid spectra demonstrates the presence of a second conformer (11(5)%) with anticlinal orientation of the N-SF5 bond according to quantum chemical calculations. The geometric structure, conformational properties, and vibrational frequencies are well reproduced by quantum chemical calculations.     

Molecular structure of noradrenaline according to gas-phase electron diffraction data and quantum chemical calculations

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Molecular structures of phthalocyaninatozinc and hexadecafluorophthalocyaninatozinc studied by gas-phase electron diffraction and quantum chemical calculations

The molecular structures of phthalocyaninatozinc (HPc-Zn) and hexadecafluorophthalocyaninatozinc (FPc- Zn) are determined using the gas electron diffraction (GED) method and high-level density functional theory (DFT) quantum chemical calculations. Calculations at the B3LYP/6-311++G** level indicate that the equilibrium structures of HPc-Zn and FPc-Zn have D4h symmetry and yield structural parameters in good agreement with those obtained by GED at 480 and 523 degrees C respectively. The calculated force fields indicate that both molecules are flexible. Normal coordinate calculations on HPc-Zn yield five vibrational frequencies (one degenerate) in the range 22-100 cm(-1), and ten vibrational frequencies ranging from 13 to 100 cm(-1) (three degenerate) for FPc-Zn. The high-level force field calculations confirm most of the previous vibrational assignments, and some new ones are suggested. The out-of-plane vibration of the Zn atom in HPc-Zn was studied in detail optimizing models in which the distance from the Zn atom to the two symmetry equivalent diagonally opposed N atoms (h) was fixed. The calculations indicate that the vibrationally activated vertically displacement of the Zn atom is accompanied by distortion of the ligand from D4h to C2v symmetry. The average height, h, at the temperature of the GED experiment was calculated to be 14.5 pm. Small structural changes indicate that a full F substitution on the benzo-subunits do not significantly alter the geometry, however there are indications that the benzo-subunits may shrink slightly with perfluorination.     

Conformational properties and electronic structure of tetrahydrotetrazines studied by photoelectron spectroscopy and quantum chemical calculations

The photoelectron (PE) spectra of tetrahydro-1,2,3,4-tetrazines 1 and 2 and tetrahydro-1,2,4,5-tetrazines 3–5 have been recorded and their conformations have been investigated by ab initio SCF calculations. While v-tetrazine2 is planar, tetrazines 1 and 3–5 each possess two low-energy conformations, according to ab initio HF and Becke3LYP methods. Attempts to assign ionization potentials to molecular orbitals obtained by semiempirical PM3 calculations indicate that this method is not suited for the compounds studied. Best results were obtained when the ab initio hybrid method Becke3LYP of the density functional theory was employed. Two conformers of 1 and 3–5 are present in the gas phase and their PE spectra are superimposed one upon the other. For v-tetrazine1, ionizations arising from half-chair and unsymmetrical boat conformers have similar energies and cannot be separated in the PE spectrum. For s-tetrazine3, on the other hand, the spectrum clearly shows different ionizations of both half-chairs, 3ee and 3ae.