Chiral one-dimensional hydrogen-bonded architectures constructed from single-enantiomer phosphoric triamides

2018 ◽  
Vol 74 (5) ◽  
pp. 608-617 ◽  
Author(s):  
Mahsa Eghbali Toularoud ◽  
Mehrdad Pourayoubi ◽  
Michal Dušek ◽  
Václav Eigner ◽  
Krishnan Damodaran

The two single-enantiomer phosphoric triamides N-(2,6-difluorobenzoyl)-N′,N′′-bis[(S)-(−)-α-methylbenzyl]phosphoric triamide, [2,6-F2-C6H3C(O)NH][(S)-(−)-(C6H5)CH(CH3)NH]2P(O), denoted L-1, and N-(2,6-difluorobenzoyl)-N′,N′′-bis[(R)-(+)-α-methylbenzyl]phosphoric triamide, [2,6-F2-C6H3C(O)NH][(R)-(+)-(C6H5)CH(CH3)NH]2P(O), denoted D-1, both C23H24F2N3O2P, have been investigated. In their structures, chiral one-dimensional hydrogen-bonded architectures are formed along [100], mediated by relatively strong N—H...O(P) and N—H...O(C) hydrogen bonds. Both assemblies include the noncentrosymmetric graph-set motifs R 2 2(10), R 2 1(6) and C 2 2(8), and the compounds crystallize in the chiral space group P1. Due to the data collection of L-1 at 120 K and of D-1 at 95 K, the unit-cell dimensions and volume show a slight difference; the contraction in the volume of D-1 with respect to that in L-1 is about 0.3%. The asymmetric units of both structures consist of two independent phosphoric triamide molecules, with the main difference being seen in one of the torsion angles in the OPNHCH(CH3)(C6H5) part. The Hirshfeld surface maps of these levo and dextro isomers are very similar; however, they are near mirror images of each other. For both structures, the full fingerprint plot of each symmetry-independent molecule shows an almost asymmetric shape as a result of its different environment in the crystal packing. It is notable that NMR spectroscopy could distinguish between compounds L-1 and D-1 that have different relative stereocentres; however, the differences in chemical shifts between them were found to be about 0.02 to 0.001 ppm under calibrated temperature conditions. In each molecule, the two chiral parts are also different in NMR media, in which chemical shifts and P–H and P–C couplings have been studied.

2015 ◽  
Vol 2015 ◽  
pp. 1-5 ◽  
Author(s):  
Ataf A. Altaf ◽  
Adnan Shahzad ◽  
Zarif Gul ◽  
Sher A. Khan ◽  
Amin Badshah ◽  
...  

1,3-Diisobutyl thiourea was synthesized and characterized by single crystal X-ray diffraction. It gives a monoclinic (α=γ= 90 andβ  ≠90) structure with the space group P21/c. The unit cell dimensions area= 11.5131 (4) Å,b= 9.2355 (3) Å,c= 11.3093 (5) Å,α= 90°,β= 99.569° (2),γ= 90°,V= 1185.78 (8) Å3, andZ= 4. The crystal packing is stabilized by intermolecular (N–H⋯S) hydrogen bonding in the molecules. The optimized geometry and Mullikan's charges of the said molecule calculated with the help of DFT using B3LYP-6-311G model support the crystal structure.


1999 ◽  
Vol 52 (10) ◽  
pp. 949 ◽  
Author(s):  
Martin A. Bennett ◽  
Glen B. Robertson ◽  
Pramesh N. Kapoor

Reaction of the cyclohexyne–platinum(0) complex [Pt(η2-C6H8)(Cy2PCH2CH2PCy2)]* with water and CO2 in the presence of triphenylphosphine gives the bicarbonate salt of the (η1-cyclohexenyl)platinum(II) cation, [Pt(η1-C6H9)(Cy2PCH2CH2 PCy2)(PPh3)] [HCO3] · 3H2O, which has been characterized by n.m.r. spectroscopy and single-crystal X-ray diffraction at low temperature. Crystals are triclinic, space group P1– with unit cell dimensions a 20.315(2), b 12.782(1), c 10.694(1) Å, α 66.61(1), β 104.73(1), γ 102.11(1)˚, and Z 2. The structure was refined to a final R value of 0.036 with use of 7553 reflections [I > 3σ(I)]. The cation has the expected, somewhat distorted planar coordination geometry; the anion consists of discrete, hydrogen-bonded dimers [(HCO3)(H2O)3]22-.


2021 ◽  
Vol 77 (4) ◽  
pp. 186-196
Author(s):  
Negin Lal Zakaria ◽  
Mehrdad Pourayoubi ◽  
Mahsa Eghbali Toularoud ◽  
Michal Dušek ◽  
Eliska Skorepova

The crystal structures of two single-enantiomer amidophosphoesters with an (O)2P(O)(N) skeleton and one single-enantiomer phosphoric triamide with an (N)2P(O)(N) skeleton were studied. The compounds are diphenyl [(R)-(+)-α-4-dimethylbenzylamido]phosphate, (I), and diphenyl [(S)-(−)-α-4-dimethylbenzylamido]phosphate, (II), both C21H22NO3P, and N-(2,6-difluorobenzoyl)-N′,N′′-bis[(R)-(+)-α-ethylbenzyl]phosphoric triamide, C25H28F2N3O2P, (III). The asymmetric units contain two amidophosphoester molecules for (I) and (II), and one phosphoric triamide molecule for (III). In the crystal structures of (I) and (II), molecules are assembled in a similar one-dimensional chiral ribbon architecture, but with almost a mirror-image relationship with respect to each other through N—H...O(P) and C—H...O(P) hydrogen bonds along [010]. In the crystal structure of (III), the chiral tape architecture along [100] is mediated by N—H...O(P) and N—H...O(C) hydrogen bonds, and the tapes are connected into slabs by C—H...O interactions (along the ab plane). The differences/similarities of the two diastereotopic phenoxy groups in (I)/(II) and the two chiral amine fragments in (III) were studied on the grounds of geometry, conformation and contribution to the crystal packing, as well as 1H and 13C signals in a solution NMR study.


1997 ◽  
Vol 53 (5) ◽  
pp. 787-794 ◽  
Author(s):  
A. E. Cohen ◽  
B. M. Craven ◽  
W. T. Klooster

Spermine phosphate hexahydrate crystallizes in space group P21/a with unit-cell dimensions a = 7.931 (1), b = 23.158 (5), c = 6.856 (2) Å, and \beta = 113.44 (2)° at 125 K with unit-cell contents [(C10H30N4)^{4+}_{2} (HPO4)^{2-}_{4}.12H2O]. The packing of spermines and monohydrogen phosphates in this crystal structure has features which may be relevant to the binding of spermine to DNA. Another important structural feature is the presence of channels containing water that is hydrogen bonded as in ice-Ih with disordered protons. The channels occur between sheets of spermine long chains and are also bordered by hydrogen-bonded monohydrogen phosphate chains. The hydrogen-bonding scheme of these water chains proposed on the basis of an earlier X-ray study is now confirmed. Nuclear positions, anisotropic mean-square (m.s.) displacements, an overall scale factor and two extinction parameters (\rho and g) were refined using full-matrix least-squares giving values of R(F^{2}_{o}) = 0.09, Rw(F^{2}_{o}) = 0.11 and S = 1.02. Thermal vibrational analysis revealed that the backbone of the spermine cation can be described as a single rigid segment with a substantial libration of 27 deg2 around the spermine molecular long axis.


2009 ◽  
Vol 65 (6) ◽  
pp. 676-683 ◽  
Author(s):  
Graham King ◽  
Susana Garcia-Martin ◽  
Patrick M. Woodward

A combination of selected-area electron diffraction (SAED), neutron powder diffraction (NPD) and high-resolution transmission electron microscopy (HRTEM) reveals a complex superstructure in the ordered perovskite NaLaMgWO6. Through indexing of SAED patterns the unit-cell dimensions are found to be 46.8 × 7.8 × 7.9 Å, which corresponds to a 12a p × 2a p × 2a p superstructure of the simple Pm\overline 3 m perovskite unit cell. HRTEM images reveal the formation of an unmistakable stripe contrast that repeats with the same periodicity. Doubling of the b and c axes is brought about by a combination of layered ordering of Na and La, rock-salt ordering of Mg and W, and octahedral tilting. The a axis repeat distance results from a one-dimensional twinning of the octahedral tilts in combination with a compositional modulation. Modeling of the NPD pattern shows that the underlying tilt system is a − a − c 0 with tilt angles of ∼ 8° about the a and b axes. The octahedral tilt-twin boundaries run perpendicular to the a axis and are separated by 6a p. Simulated HRTEM images show that octahedral tilt twinning alone cannot explain the stripes seen in the HRTEM images, rather a compositional modulation involving the A-site cations is necessary to explain the experimental images.


2005 ◽  
Vol 61 (6) ◽  
pp. 717-723 ◽  
Author(s):  
Patricia Lozano-Casal ◽  
David R. Allan ◽  
Simon Parsons

The crystal structure of cyclopropylamine at 1.2 GPa has been determined by X-ray diffraction methods. The structure of this phase is orthorhombic, space group Pbca and the unit-cell dimensions are a =  5.0741 (10), b  =  9.7594 (10) and c  =  13.305 (2) Å. Only one of the two H atoms of the amino group actively participates in the formation of the hydrogen-bonded chains, C(2) in graph-set notation, which lie parallel to the crystallographic a axis. Additionally, the topology of the crystal packing is studied using both Voronoi–Dirichlet polyhedra and Hirshfeld surface analyses for the low-temperature and the high-pressure structures of cyclopropylamine and the results are compared.


2016 ◽  
Vol 8 (1) ◽  
pp. 1500-1507
Author(s):  
Yosra Baklouti ◽  
Abdelaziz Koumina ◽  
Mohamed Fliyou ◽  
Fatma Zouari

Synthesis and crystal structure of 3-3’-diamino-N-methyldipropylammonuim hexachlorobismuthate (III) are reported. The compound crystallizes in the triclinic system with space group P1. The unit cell dimensions are:             a = 7.5580(5), b =7.8710(6), c = 8.3709(7) Å with Z=1. The crystal is built up of separated [BiCl6]3- octahedral anions and 3-3’-diamino-N- methyldipropylammonium cations. The organic layers are arranged in sandwich between the anionic ones. The crystal packing is governed by means of the ionic   N–H···Cl hydrogen bonds, forming a three dimensional network.


2019 ◽  
Vol 75 (1) ◽  
pp. 77-84 ◽  
Author(s):  
Fahimeh Sabbaghi ◽  
Mehrdad Pourayoubi ◽  
Marek Nečas ◽  
Krishnan Damodaran

The crystal structures of two single-enantiomer amidophosphoesters with an (O)2P(O)(N) skeleton, i.e. diphenyl [(R)-(+)-α-methylbenzylamido]phosphate, (I), and diphenyl [(S)-(−)-α-methylbenzylamido]phosphate, (II), both C20H20NO3P, are reported. In both structures, chiral one-dimensional hydrogen-bonded architectures, along [010], are mediated by N—H...OP interactions. The statistically identical assemblies include the noncentrosymmetric graph-set motif C(4) and the compounds crystallize in the chiral space group P21. As a result of synergistic co-operation from C—H...O interactions, a two-dimensional superstructure is built including a noncentrosymmetric R 4 4(22) hydrogen-bonded motif. A Cambridge Structural Database survey was performed on (O)2P(O)(N)-based structures in order to review the frequency of space groups observed in this family of compounds; the hydrogen-bond motifs in structures with chiral space groups and the types of groups inducing chirality are discussed. The 2,3 JX –P (X = H or C) coupling constants from the NMR spectra of (I) and (II) have been studied. In each compound, the two diastereotopic C6H5O groups are different, which is reflected in the different chemical shifts and some coupling constants.


1982 ◽  
Vol 60 (18) ◽  
pp. 2392-2397 ◽  
Author(s):  
M. Cygler

4,7-Oxido-7-methyl-7-hydroxymethyl-2,2,6,6-tetramethylpiperidin-1-oxyl, C12H22NO3, crystallizes in the monoclinic space group P21/m with unit cell dimensions a = 8.041(1), b = 13.348(1), c = 5.945(1) Å, β = 95.90(1)°, Z = 2. Intensity data were measured on a diffractometer and the structure solved by direct methods. The least-squares refinement converged at R = 0.039 for 1304 reflections. Two enantiomeric molecules, differing in the position of the OH group, occupy the same site in the asymmetric unit (each with a probability of 0.5) giving rise to a disorder of the hydroxyl group. The piperidine ring adopts the usual chair conformation, with C—C—C—C torsion angles being intermediate between those observed for C(4) mono- and for bisubstituted nitroxypiperidine derivatives. The N—O bond is 1.282(2) Å long, and it makes an angle of 18.5(2)° with the CNC plane. Molecules are connected by O—H … O hydrogen bonds. The influence of the degree of substitution at C(4) on ring geometry is discussed.


2011 ◽  
Vol 67 (6) ◽  
pp. 476-485 ◽  
Author(s):  
H. Krüger ◽  
S. Stöber ◽  
T. R. Welberry ◽  
R. L. Withers ◽  
J. D. Fitz Gerald

Single crystals of Ca4Fe2Mn0.5Ti0.5O9 have been synthesized using a flux method. The structural characterization using single-crystal X-ray diffraction revealed the space group Amma and unit-cell dimensions of a = 5.3510 (6), b = 26.669 (3), c = 5.4914 (6) Å. The structure is isotypic with Sr3NdFe3O9 [Barrier et al. (2005). Chem. Mater. 17, 6619–6623] and exhibits separated brownmillerite-type layers. One-dimensional diffuse scattering shows that the unit cell is doubled along c by alternating the intra-layer order of tetrahedral chains, causing stacking faults along the b direction. A computer simulation was performed, proving that the observed intensity variations along the diffuse scattering rods originates from two different local structures depending on the configuration of the tetrahedral chains. Selected-area electron diffraction experiments exhibit well ordered regions characterized by satellite reflections corresponding to two different superstructures. Both superstructures can be described using the superspace group A21/m(0βγ)0s, with γ = 0.5 and β ≃ 0.27 or β = 0.


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