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All sourcesNASA NTRSDOE OSTI
DOE OSTI2015

Pancake π–π Bonding Goes Double: Unexpected 4e/All-Sites Bonding in Boron- and Nitrogen-Doped Phenalenyls

Phenalenyl is an important neutral pi-radical due to its capability to form unconventional pancake pi-pi bonding interactions, whereas its analogues with graphitic boron (B) or nitrogen (N)-doping have been regarded as closed-shell systems and therefore received much less attention. By using high-level quantum chemistry calculations, we also show that the B- and N-doped closed-shell phenalenyls unexpectedly form open-shell singlet pi-dimers with diradicaloid character featuring 2e/all-sites double pi-pi bonding. Moreover, by proper substitutions, the doped phenalenyl derivatives can be made open-shell species that form closed shell singlet pi-dimers bound by stronger 4e/all-sites double pi-pi bonding. Moreover, covalent pi-pi bonding overlap is distributed on all of the atomic sites giving robust and genuine pancake-shaped pi-dimers which, depending on the number of electrons available in the bonding interactions, are equally or more stable than the pi-dimers of the pristine phenalenyl.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1995

Organic Compounds Produced by Photolysis of Realistic Interstellar and Cometary Ice Analogs Containing Methanol

The InfraRed (IR) spectra of UltraViolet (UV) and thermally processed, methanol-containing interstellar / cometary ice analogs at temperatures from 12 to 300 K are presented. Infrared spectroscopy, H-1 and C-13 Nuclear Magnetic Resonance (NMR) spectroscopy, and gas chromatography-mass spectrometry indicate that CO (carbon monoxide), CO2 (carbon dioxide), CH4 (methane), HCO (the formyl radical), H2CO (formaldehyde), CH3CH2OH (ethanol), HC([double bond]O)NH2 (formamide), CH3C([double bond]O)NH2 (acetamide), and R[single bond]C[triple bond]N (nitriles) are formed. In addition, the organic materials remaining after photolyzed ice analogs have been warmed to room temperature contain (in rough order of decreasing abundance), (1) hexamethylenetetramine (HMT, C6H12N4), (2) ethers, alcohols, and compounds related to PolyOxyMethylene (POM, ([single bond]CH2O[single bond](sub n)), and (3) ketones (R[single bond]C([double bond]O)[single bond]R') and amides (H2NC([double bond]O)[single bond]R). Most of the carbon in these residues is thought to come from the methanol in the original ice. Deuterium and C-13 isotopic labeling demonstrates that methanol is definitely the source of carbon in HMT. High concentrations of HMT in interstellar and cometary ices could have important astrophysical consequences. The ultraviolet photolysis of HMT frozen in H2O ice readily produces the 'XCN' band observed in the spectra of protostellar objects and laboratory ices, as well as other nitriles. Thus, HMT may be a precursor of XCN and a source of CN in comets and the interstellar medium. Also, HMT is known to hydrolyze under acidic conditions to yield ammonia, formaldehyde, and amino acids. Thus, HMT may be a significant source of prebiogenic compounds on asteroidal parent bodies. A potential mechanism for the radiative formation of HMT in cosmic ices is outlined.

Bernstein, Max P.↗
DOE OSTI2017

Double-stage nematic bond ordering above double stripe magnetism: Application to BaTi 2 Sb 2 O

Spin-driven nematicity, or the breaking of the point-group symmetry of the lattice without long-range magnetic order, is clearly quite important in iron-based superconductors. From a symmetry point of view, nematic order can be described as a coherent locking of spin fluctuations in two interpenetrating Néel sublattices with ensuing nearest-neighbor bond order and an absence of static magnetism. In this paper, we argue that the low-temperature state of the recently discovered superconductor BaTi 2 Sb 2 O is a strong candidate for a more exotic form of spin-driven nematic order, in which fluctuations occurring in four Néel sublattices promote both nearest- and next-nearest-neighbor bond order. We develop a low-energy field theory of this state and show that it can have, as a function of temperature, up to two separate bond-order phase transitions, namely, one that breaks rotation symmetry and one that breaks reflection and translation symmetries of the lattice. The resulting state has an orthorhombic lattice distortion, an intra-unit-cell charge density wave, and no long-range magnetic order, all consistent with reported measurements of the low-temperature phase of BaTi 2 Sb 2 O . Finally, we then use density functional theory calculations to extract exchange parameters to confirm that the model is applicable to BaTi 2 Sb 2 O .

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
NASA NTRS1950

Fundamental flame velocities of pure hydrocarbons II : alkadienes

Data are presented for the fundamental flame velocities of 10 pure alkadienes that have isolated, conjugated, or cumulative double-bond systems. On the basis of this limited amount of data and the flame velocities previously reported, it is concluded that unsaturation changes the flame velocity in the order alkanes ? alkenes ? alkadienes with isolated double bonds ?= alkadienes with conjugated double bonds ? alkadienes with cumulative double bonds ?= alkynes. There were no significant differences in the flame velocities of cis and trans 1,3-pentadiene. The alkadienes 1,2-pentadiene and 2,3-pentadiene, with different positions of the cumulative double bond in the straight chain, have similar flame velocities. Methyl substitution in a hydrocarbon reduces the flame velocity; the extent of the reduction increases with the degree of unsaturation of the hydrocarbon.

Levine, Oscar↗
DOE OSTI2020

Excited state dynamics of cis,cis-1,3-cyclooctadiene: Non-adiabatic trajectory surface hopping

We have performed trajectory surface hopping dynamics for cis,cis-1,3-cyclooctadiene to investigate the photochemical pathways involved after being excited to the S 1 state. Our calculations reveal ultrafast decay to the ground state, facilitated by conical intersections involving distortions around the double bonds. The main distortions are localized on one double bond, involving twisting and pyramidalization of one of the carbons of that double bond (similar to ethylene), while a limited number of trajectories decay via delocalized (non-local) twisting of both double bonds. The interplay between local and non-local distortions is important in our understanding of photoisomerization in conjugated systems. The calculations show that a broad range of the conical intersection seam space is accessed during the non-adiabatic events. Several products formed on the ground state have also been observed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2018

Electronic Structure and Triplet-Triplet Energy Transfer in Artificial Photosynthetic Antennas

Three Pd(II) phthalocyanine–carotenoid dyads featuring chromophores linked by amide bonds were prepared in order to investigate the rate of triplet–triplet (T-T) energy transfer from the tetrapyrrole to the covalently attached carotenoid as a function of the number of conjugated double bonds in the carotenoid. Carotenoids having 9, 10 and 11 conjugated double bonds were studied. Transient absorption measurements show that intersystem crossing in the Pd(II) phthalocyanine takes place in 10 ps in each case and that T-T energy transfer occurs in 126, 81 and 132 ps in the dyads bearing 9, 10 and 11 double bond carotenoids, respectively. To identify the origin of this variation in T-T energy transfer rates, density functional theory (DFT) was used to calculate the T-T electronic coupling in the three dyads. According to the calculations, the primary reason for the observed T-T energy transfer trend is larger T-T electronic coupling between the tetrapyrrole and the 10-double bond carotenoid. A methyl group adjacent to the amide linker that connects the Pd(II) phthalocyanine and the carotenoid in the 9 and 11-double bond carotenoids is absent in the 10-double bond carotenoid, and this difference alters its electronic structure to increase the coupling.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1981

Thermal Rearrangements of Polybutadienes with Different Vinyl Contents

A study was made of the loss of double bonds in equibinary (1,4-1,2) polybutadiene (EB) and in polybutadienes with 30% 1,2, 70% 1,4 (FI), and 10% 1,2, 90% 1,4 (DI) double-bond content, when heated in vacuum under nonpyrolitic conditions (temperature range 220-280 C). These polymers were found to undergo second-order loss of 1,2 unsaturation with similar activation energies (E(sub a) = 34.0 +/- 3 kcal/mole), by analogy to the previously reported thermally induced loss of double bonds in 1,2-polybutadiene (VB) (E(sub a) = 33.6 +/- 3 kcal/mole). Moreover, EB and Fl exhibited also second-order loss of 1,4 unsaturation, with E(sub a) ca. 36 and 40 kcal/mole, respectively, while DI showed negligible loss of 1,4 unsaturation below 260 C, in common with cis-1,4-polybutadiene (CB) (with 2% 1,2 double bonds) examined earlier. The loss of 1,2 double bonds in the various polybutadienes with different vinyl contents is accompanied by substantial methyl production, ranging from about one methyl group formed for every 4-5 vinyl units lost in VB, to one methyl for every two vinyls lost in EB,and to almost one methyl for each vinyl lost in DI or CB. Mechanisms are proposed for the thermally induced loss of 1,2 and 1,4 unsaturation in various polybutadienes and for the accompanying methyl production.

Golub, Morton A.↗
DOE OSTI2014

General model of phospholipid bilayers in fluid phase within the single chain mean field theory

Coarse-grained model for saturated phospholipids: 1,2-didecanoyl-sn-glycero-3-phosphocholine (DCPC), 1,2-dilauroyl-sn-glycero-3-phosphocholine (DLPC), 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC), 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC), 1,2-distearoyl-sn-glycero-3-phosphocholine (DSPC) and unsaturated phospholipids: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), 1,2- dioleoyl-sn-glycero-3-phosphocholine (DOPC) is introduced within the single chain mean field theory. A single set of parameters adjusted for DMPC bilayers gives an adequate description of equilibrium and mechanical properties of a range of saturated lipid molecules that differ only in length of their hydrophobic tails and unsaturated (POPC, DOPC) phospholipids which have double bonds in the tails. A double bond is modeled with a fixed angle of 120°, while the rest of the parameters are kept the same as saturated lipids. The thickness of the bilayer and its hydrophobic core, the compressibility, and the equilibrium area per lipid correspond to experimentally measured values for each lipid, changing linearly with the length of the tail. The model for unsaturated phospholipids also fetches main thermodynamical properties of the bilayers. This model is used for an accurate estimation of the free energies of the compressed or stretched bilayers in stacks or multilayers and gives reasonable estimates for free energies. The proposed model may further be used for studies of mixtures of lipids, small molecule inclusions, interactions of bilayers with embedded proteins.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Robust, Accurate, and Efficient: Quantum Embedding Using the Huzinaga Level-Shift Projection Operator for Complex Systems

Using wave function (WF) in density functional theory (DFT) embedding methods provides a framework for performing localized, high-accuracy WF calculations on a system, while not incurring the full computational cost of the WF calculation on the full system. To effectively partition a system into localized WF and DFT subsystems, we utilize the Huzinaga level-shift projection operator within an absolutely localized basis. In this work, we study the ability of the absolutely localized Huzinaga level-shift projection operator method to study complex WF and DFT partitions, including partitions between multiple covalent bonds, a double bond, and transition-metal–ligand bonds. We find that our methodology can accurately describe all of these complex partitions. Additionally, we study the robustness of this method with respect to the WF method, specifically where the embedded systems were described using a multiconfigurational WF method. We found that the method is systematically improvable with respect to both the number of atoms in the WF region and the size of the basis set used, with energy errors less than 1 kcal/mol. Additionally, we calculated the adsorption energy of H2 to a model of an iron metal–organic framework (Fe-MOF-74) to within 1 kcal/mol compared to CASPT2 calculations performed on the full model while incurring only a small fraction of the full computational cost. In conclusion, this work demonstrates that the absolutely localized Huzinaga level-shift projection operator method is applicable to very complex systems with difficult electronic structures.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1973

Adhesive-bonded double-lap joints

Explicit analytical solutions are derived for the static load carrying capacity of double-lap adhesive-bonded joints. The analyses extend the elastic solution Volkersen and cover adhesive plasticity, adherend stiffness imbalance and thermal mismatch between the adherends. Both elastic-plastic and bi-elastic adhesive representations lead to the explicit result that the influence of the adhesive on the maximum potential bond strength is defined uniquely by the strain energy in shear per unit area of bond. Failures induced by peel stresses at the ends of the joint are examined. This failure mode is particularly important for composite adherends. The explicit solutions are sufficiently simple to be used for design purposes

Hart-Smith, L. J.↗
NASA NTRS1978

Thermal rearrangements of unsaturated polymers

Thermal anaerobic uncatalyzed cyclizations and cis-trans isomerizations observed in unsaturated hydrocarbon polymers are surveyed. Three main types of cyclizations are described. Type I is a radical reaction which is caused by chain rupture and gives rise to six-membered rings; this reaction occurs during pyrolysis of polymers with double bonds in a 1,5- or 1,6-diene configuration. Type II is a (2 + 2) thermal cycloaddition of double bonds in certain polymers with a 1,6-diene structure; bicycloheptane structures result. Type III is an intramolecular ene reaction. Many polymers containing a double bond linking CH units display thermal cis-trans isomerization. The common activation energy is approximately 130 kJ/mol, and the initial rate constants are lower, for homologous polymers, the greater the separation of the carbon-carbon double bonds.

Golub, M. A.↗
DOE OSTI2011

Structural and Mechanistic Analysis through Electronic Spectra: Aqueous Hyponitrite Radical (N(2)O(2)(-)) and Nitrosyl Hyponitrite Anion (N(3)O(3)(-))

Aqueous hyponitrite radical (N{sub 2}O{sub 2}{sup -}) and nitrosyl hyponitrite anion (N{sub 3}O{sub 3}{sup -}) are important intermediates in the reductive chemistry of NO. The structures and absorption spectra of various hydrated isomers of these compounds were investigated in this work using high-level quantum mechanical calculations combined with the explicit classical description of the aqueous environment. For N{sub 2}O{sub 2}{sup -}, comparison of the calculated spectra and energetics with the experimental data reveals that (1) upon the one-electron oxidation of trans-hyponitrite (ON{double_bond}NO{sup 2-}), the trans configuration of the resulting ON{double_bond}NO{sup -} radical is preserved; (2) although cis- and trans-ON{double_bond}NO{sup -} are energetically nearly equivalent, the barrier for the trans-cis isomerization is prohibitively high because of the partial double character of the NN bond; (3) the calculations confirm that the UV spectrum of ONNO{sup -} was misinterpreted in the earlier pulse radiolysis work, and its more recent revision has been justified. For the N{sub 3}O{sub 3}{sup -} ion, the symmetric isomer the dominant observable species, and the asymmetric isomer contributes insignificantly to the experimental spectrum. Coherent analysis of the calculated and experimental data suggests a reinterpretation of the N{sub 2}O{sub 2}{sup -} + NO reaction mechanism according to which the reaction evenly bifurcates to yield both the symmetric and asymmetric isomers of N{sub 3}O{sub 3}{sup -}. While the latter isomer rapidly decomposes to the final NO{sub 2}{sup -} + N{sub 2}O products, the former isomer is stable toward this decomposition, but its formation is reversible with the homolysis equilibrium constant K{sub hom} = 2.2 x 10{sup -7} M. Collectively, these results demonstrate that advanced theoretical modeling can be of significant benefit in structural and mechanistic analysis on the basis of the electronic spectra of aqueous transients.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2019

Electronic Structure of Naturally Occurring Aromatic Carbon

Aromatic carbon in fused-ring systems can be classified into two forms of electronic structure: aromatic sextets, which have large highest occupied molecular orbital (HOMO)–lowest unoccupied molecular orbital (LUMO) gaps and resemble benzene; and isolated double bonds, which have small HOMO–LUMO gaps and resemble olefins. The relative abundance of aromatic sextets versus isolated double bonds in mixtures can be probed by carbon X-ray Raman spectroscopy. Here, we report the carbon X-ray Raman spectra of a wide variety of forms of naturally occurring aromatic carbon: kerogen (insoluble organic carbon in sedimentary rocks, which is the most abundant form of naturally occurring organic carbon in the Earth’s crust) over a range of types and thermal maturities, fresh materials of a variety of forms, and coal and petroleum asphaltenes (toluene soluble and heptane insoluble materials, which represent organic carbon resulting from extensive thermal processing). It is observed that all these materials are dominated by aromatic sextets over isolated double bonds. On the basis of the diversity of materials analyzed, it is concluded that naturally occurring organic carbon is generally dominated by aromatic sextets over isolated double bonds. This conclusion is rationalized in terms of statistical and thermodynamic effects.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2018

Complexes of dichlorosilylene with allyl chloride and allyl bromide: matrix IR spectroscopy and quantum chemical studies

Formation of donor-acceptor complexes between dichlorosilylene, SiCl{sub 2}, and allyl halides, AllHal(Hal= Cl, Br) was detected in Ar matrixes using matrix IR spectroscopy. In agreement with the predictions of the performed quantum chemical calculations, only broad unstructured absorption bands contributed by different conformers of the 1 : 1 complexes between SiCl{sub 2} and AllHal were observed in IR spectra of matrixes after deposition in the regions of characteristic vibrations of starting reactants. Annealing of matrixes resulted in strong narrowing the bands due to conversions of different conformers into the most stable structures. The predominantly formed conformers in both the reaction systems were those of complexes with SiCl{sub 2} coordinated to the Hal atoms of AllHal in the gauche conformations. At the same time, according to the calculations, the complexes with SiCl{sub 2} coordination to the double bonds of AllHal can be only slightly less stable than the complexes with coordination to the Hal atoms, and all these basic centers can be considered as comparable in their activity in the complexation. The only products revealed upon photolysis of complexes were the products of silylene insertion into the C–Hal bonds, viz., AllSiCl{sub 3} and AllSiCl{sub 2}Br. Theoretical study of thermal transformations in the SiCl{sub 2} + AllHal systems showed that formal insertion of SiCl{sub 2} in the C–Hal bonds and its addition to the double bonds of AllHal have low activation barriers of 3–8 kcal mol{sup –1}. However, these barriers are too high for these reactions to occur under the matrix isolation conditions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2012

Testing the Concept of Hypervalency: Charge Density Analysis of K[subscript 2]SO[subscript 4]

One of the most basic concepts in chemical bonding theory is the octet rule, which was introduced by Lewis in 1916, but later challenged by Pauling to explain the bonding of third-row elements. In the third row, the central atom was assumed to exceed the octet by employing d orbitals in double bonding leading to hypervalency. Ever since, polyoxoanions such as SO{sub 4}{sup 2-}, PO{sub 4}{sup 3-}, and ClO{sub 4}{sup -} have been paradigmatic examples for the concept of hypervalency in which the double bonds resonate among the oxygen atoms. Here, we examine S-O bonding by investigating the charge density of the sulfate group, SO{sub 4}{sup 2-}, within a crystalline environment based both on experimental and theoretical methods. K{sub 2}SO{sup 4} is a high symmetry inorganic solid, where the crystals are strongly affected by extinction effects. Therefore, high quality, very low temperature single crystal X-ray diffraction data were collected using a small crystal (30 {micro}m) and a high-energy (30 keV) synchrotron beam. The experimental charge density was determined by multipole modeling, whereas a theoretical density was obtained from periodic ab initio DFT calculations. The chemical bonding was jointly analyzed within the framework of the Quantum Theory of Atoms In Molecules only using quantities derived from an experimental observable (the charge density). The combined evidence suggests a bonding situation where the S-O interactions can be characterized as highly polarized, covalent bonds, with the 'single bond' description significantly prevailing over the 'double bond' picture. Thus, the study rules out the hypervalent description of the sulfur atom in the sulfate group.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2015

Hydrolysis of Ketene Catalyzed by Formic Acid: Modification of Reaction Mechanism, Energetics, and Kinetics with Organic Acid Catalysis

The hydrolysis of ketene (H2C=C=O) to form acetic acid involving two water molecules and also separately in the presence of one to two water molecules and formic acid (FA) was investigated. Our results show that, while the currently accepted indirect mechanism, involving addition of water across the carbonyl C=O bond of ketene to form an ene-diol followed by tautomerization of the ene-diol to form acetic acid, is the preferred pathway when water alone is present, with formic acid as catalyst, addition of water across the ketene C=C double bond to directly produce acetic acid becomes the kinetically favored pathway for temperatures below 400 K. We find not only that the overall barrier for ketene hydrolysis involving one water molecule and formic acid (H2C2O + H2O + FA) is significantly lower than that involving two water molecules (H2C2O + 2H(2)O) but also that FA is able to reduce the barrier height for the direct path, involving addition of water across the C=C double bond, so that it is essentially identical with (6.4 kcal/mol) that for the indirect ene-diol formation path involving addition of water across the C=O bond. For the case of ketene hydrolysis involving two water molecules and formic acid (H2C2O + 2H(2)O + FA), the barrier for the direct addition of water across the C=C double bond is reduced even further and is 2.5 kcal/mol lower relative to the ene-diol path involving addition of water across the C=O bond. In fact, the hydrolysis barrier for the H2C2O + 2H(2)O + FA reaction through the direct path is sufficiently low (2.5 kcal/mol) for it to be an energetically accessible pathway for acetic acid formation under atmospheric conditions. Given the structural similarity between acetic and formic acid, our results also have potential implications for aqueous-phase chemistry. Thus, in an aqueous environment, even in the absence of formic acid, though the initial mechanism for ketene hydrolysis is expected to involve addition of water across the carbonyl bond as is currently accepted, the production and accumulation of acetic acid will likely alter the preferred pathway to one involving addition of water across the ketene C=C double bond as the reaction proceeds.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2019

Imaging Changes in Cell Walls of Engineered Poplar by Stimulated Raman Scattering and Atomic Force Microscopy

Lignin is a major impediment in the deconstruction of plant biomass to its soluble monomeric constituents. Modification of the lignin biosynthetic pathway has proven to be an effective means of reducing biomass recalcitrance but can often result in impaired growth. As one of the successful instances of “designer” biomass, “Zip-lignin” has been generated in poplar to introduce ester linkages into the lignin backbone. The resulting plants grow normally and have improved biomass deconstructability, especially under mild alkaline conditions that can effectively cleave the uniquely introduced ester bonds. In order to further understand the structural and chemical features that may be associated with the observed improved processing efficiency, we used hyperspectral stimulated Raman scattering (hsSRS) to map the Zip-lignin in planta using lignin conjugated α–β carbon double bonds as the proxy. Such double bonds are introduced in all types of lignin, but unique structures in Zip-lignins experience a ~20 cm –1 shift from 1650 to 1630 cm –1 in their Raman spectra due to the conjugation between the double bond and an associated ester carbonyl group. Analysis of the hsSRS images has revealed that the Raman signal specifically representing Zip-lignin can be estimated. Moreover, it exhibits a distribution pattern in cell wall layers similar to that of the native lignin, but its intensity varies in different transgenic poplar lines. In addition, when the cell walls are imaged by atomic force microscopy and Simons’ staining, we found that the poplar containing the Zip-lignin had increased accessible areas, which may be beneficial to the chemical penetration during pretreatment and substrate accessibility during enzymatic hydrolysis. Our work indicates that both physical and chemical modification of cell wall in Zip-lignin poplar could contribute to the observed improvements in sugar yields.

09 BIOMASS FUELS↗