Choice of hydrogen bonds or halogen bonds by 2-halogenated 5-morpholinomethylphenyl triazolo[1,5-a]pyridine

CrystEngComm ◽  
2018 ◽  
Vol 20 (22) ◽  
pp. 3006-3010 ◽  
Author(s):  
Changfu Li ◽  
Yingying Chai ◽  
Xinglong Zhou ◽  
Zhen Shen ◽  
Beibei Ma ◽  
...  
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Structural Chemistry ◽  
Pyridine Derivatives ◽  
Halogen Bonds

The crystal structures of halogenated 1,2,4-triazolo[1,5-a]pyridine derivatives disclose intriguing structural chemistry features dictated by the formation of either hydrogen bonds (HBs) or halogen bonds (XBs).

Intermolecular binding preferences of haloethynyl halogen-bond donors as a function of molecular electrostatic potentials in a family of N-(pyridin-2-yl)amides

2021 ◽  
Author(s):  
Amila M. Abeysekera ◽  
Boris B. Averkiev ◽  
Pierre Le Magueres ◽  
Christer B. Aakeröy
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Halogen Bond ◽  
Electrostatic Potentials ◽  
Halogen Bonds ◽  
Molecular Electrostatic Potentials

The roles played by halogen bonds and hydrogen bonds in the crystal structures of N-(pyridin-2-yl)amides were evaluated and rationalised in the context of calculated molecular electrostatic potentials.

scholarly journals Crystal structures of the dioxane hemisolvates ofN-(7-bromomethyl-1,8-naphthyridin-2-yl)acetamide and bis[N-(7-dibromomethyl-1,8-naphthyridin-2-yl)acetamide]

2017 ◽  
Vol 73 (10) ◽  
pp. 1409-1413 ◽  
Author(s):  
Robert Rosin ◽  
Wilhelm Seichter ◽  
Monika Mazik
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Lone Electron Pair ◽  
Electron Pair ◽  
Three Dimensional ◽  
Supramolecular Network ◽  
Halogen Bonds ◽  
Host Interactions ◽  
Compound Ii ◽  
Noncovalent Bonding

The syntheses and crystal structures ofN-(7-bromomethyl-1,8-naphthyridin-2-yl)acetamide dioxane hemisolvate, C11H10BrN3O·0.5C4H8O2, (I), and bis[N-(7-dibromomethyl-1,8-naphthyridin-2-yl)acetamide] dioxane hemisolvate, 2C11H9Br2N3O·0.5C4H8O2, (II), are described. The molecules adopt a conformation with the N—H hydrogen pointing towards the lone electron pair of the adjacent naphthyridine N atom. The crystals of (I) are stabilized by a three-dimensional supramolecular network comprising N—H...N, C—H...N and C—H...O hydrogen bonds, as well as C—Br...π halogen bonds. The crystals of compound (II) are stabilized by a three-dimensional supramolecular network comprising N—H...N, C—H...N and C—H...O hydrogen bonds, as well as C—H...π contacts and C—Br...π halogen bonds. The structure of the substituent attached in the 7-position of the naphthyridine skeleton has a fundamental influence on the pattern of intermolecular noncovalent bonding. While the Br atom of (I) participates in weak C—Br...Oguestand C—Br...π contacts, the Br atoms of compound (II) are involved in host–host interactionsviaC—Br...O=C, C—Br...N and C—Br...π bonding.

Polysulfonylamine, CLXXXVIII [1]. Kristallstrukturen von drei Dimethylammonium-di(4-halogenbenzolsulfonyl)amiden (Halogen = Cl, Br, I) und von Dimethylammonium-di(4-methylbenzolsulfonyl)amid: Eine isotype Reihe mit strukturbestimmenden starken Wasserstoffbrücken und beiläufigen Halogenbrücken/ Polysulfonylamines, CLXXXVIII. Crystal Structures of Three Dimethylammonium Di(4-halobenzenesulfonyl)amides (Halogen = Cl, Br, I) and of Dimethylammonium Di(4-methylbenzenesulfonyl)amide: An Isotypical Series Featuring Strong Structure-determining Hydrogen Bonds and Incidental Halogen Bonds

2010 ◽  
Vol 65 (10) ◽  
pp. 1258-1266 ◽  
Author(s):  
Christoph Wölper ◽  
Alejandra Rodríguez-Gimeno ◽  
Matthias Freytag ◽  
Peter G. Jones ◽  
Armand Blaschette
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Causative Factor ◽  
Monoclinic Space Group ◽  
Halogen Bonds ◽  
Space Group ◽  
Dimethylammonium Chloride ◽  
Hydrogen Bonded

The four title compounds, Me2NH2+·(4-Cl/Br/I/Me-C6H4-SO2)2N-, were obtained by metathesis of dimethylammonium chloride with the corresponding silver di(arenesulfonyl)amides. The products crystallize isotypically in the monoclinic space group Cc (Z = 4, Z´ = 1). In each structure, the ionic entities associate into hydrogen-bonded chains, which propagate along the c axis of the crystals and consist of alternating cations and anions held together by charge-assisted N+-H· · ·N− and N+- H(· · ·O)2 hydrogen bonds. In the three structures containing 4-halobenzenesulfonyl groups, each hydrogen-bonded chain is linked to four neighboring chains by pairs of C-Cl/Br/I· · ·O halogen bonds, which at first sight seem to be the causative factor in the formation of catemeric head-to-tail arrays of anions propagating along the ab face diagonals. On suppressing these halogen bonds by means of halogen-methyl exchange, all essential features of the packing architecture, including the anion headto- tail arrays, are precisely maintained. It may be thus inferred that the halogen bonds occurring in the first three compounds are supportive incidentals, but do not play any structure-determining role.

scholarly journals Water molecules insert into N—H...Cl—M hydrogen bonds while M—Cl...X—C halogen bonds remain intact in dihydrates of halopyridinium hexachloroplatinates

2004 ◽  
Vol 60 (5) ◽  
pp. 512-519 ◽  
Author(s):  
Fiorenzo Zordan ◽  
Lee Brammer
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Water Molecules ◽  
Halogen Bonds ◽  
Polymorphic Forms ◽  
Molecular Components ◽  
Iodo Derivative

The crystal structures of the 3-halopyridinium hexachloroplatinate(IV) dihydrates (HPyX-3)2[PtCl6]·2H2O [(1), X = Br; (2a), (2b), X = I] comprise networks in which the molecular components are linked via N—H...O and O—H...Cl—Pt hydrogen bonds and Pt—Cl...X—C halogen bonds (X = Br, I). The iodo derivative has been isolated in two polymorphic forms. Of particular interest to the understanding of the utility of the hydrogen bonds and M—X...X′—C halogen bonds that propagate the networks in anhydrous salts of this type is that the water molecules insert exclusively into the putative N—H...Cl—Pt hydrogen bonds, while the Pt—Cl...X′—C halogen bonds remain undisrupted by the presence of water molecules.

Polysulfonylamine, CXCII [1]. Polynäre Verbindungen aus Di(4-fluorbenzolsulfonyl) amin (FAH), 1,1,3-Trimethylharnstoff (TrMU) und Dimethylamin (Me2NH): Bildung und Strukturen des Cokristalls FAH·TrMU (Z′ = 1), des Salzes Me2NH2 +·FA– (Z′ = 6) und des Salz-Cokristalls FAH·TrMU·Me2NH2 +·FA– (Z′ = 1). Bemerkungen zur Oxophobie von C–F-Gruppen in Kristallstrukturen / Polysulfonylamines, CXCII. Polynary Compounds Based upon Di(4-fluorobenzenesulfonyl)amine (FAH), 1,1,3-Trimethylurea (TrMU) and Dimethylamine (Me2NH): Formation and Structures of the Cocrystal FAH·TrMU (Z′ = 1), the Salt Me2 NH2 +·FA− (Z′ = 6) and the Salt Cocrystal FAH·TrMU·Me2NH2 +·FA− (Z′ = 1). Comments on the Oxophobia of C–F Groups in Crystal Structures

2011 ◽  
Vol 66 (11) ◽  
pp. 1161-1174
Author(s):  
Christoph Wölper ◽  
Alejandra Rodríguez-Gimeno ◽  
Katherine Chulvi Iborra ◽  
Ina Dix ◽  
Matthias Freytag ◽  
...  
Keyword(s):  
Hydrogen Bonds ◽  
Petroleum Ether ◽  
Crystal Structures ◽  
Hydrolysis Reaction ◽  
Formula Unit ◽  
Halogen Bonds ◽  
Ionic Polymer ◽  
One Dimensional ◽  
Independent Unit ◽  
Salt Component

Cocrystallization of di(4-fluorobenzenesulfonyl)amine, (4-F-C6H4SO2)2NH (= FAH), with 1,3,3- trimethylurea (TrMU) from dichloromethane/petroleum ether afforded the molecular cocrystal FAH・TrMU (1, monoclinic, P21/n, Z′ = 1) and the salt cocrystal FAH・TrMU・Me2NH2+・FA− (2, monoclinic, P21, Z′ = 1). The minor product 2 resulted from a hydrolysis reaction of TrMU and was obtained by serendipity. The salt component of 2, Me2NH2+・FA− (3, monoclinic, C2, Z′ = 6), was prepared by metathesis of [Me2NH2]Cl with Ag[FA] and is not isomorphous to its previously reported congeners Me2NH2+・(4-X-C6H4SO2)2N− (4 - 7 for X = Cl, Br, I or Me, all monoclinic, Cc, Z′ = 1). The three new structures display one-dimensional arrays (catemers) based upon classical two- or three-centre hydrogen bonds that use N-H or N+-H groups as donors and S=O, C=O or N− groups as acceptors. In 1, the catemers consist of alternating FAH and TrMU molecules, in 3 of alternating Me2NH2+ and FA− ions (six independent formula units), in 2 of alternating Me2NH2+ and FA− ions (one independent unit) and FAH・ ・ ・ TrMU・ ・ ・ heterodimers acting as side-groups to the ionic polymer. The packings of 1 - 3 are completely devoid of short fluorine-oxygen contacts below the van derWaals limit, as are all the known crystal structures containing FAH or FA− entities (“oxophobia” of the C-F groups). The Z′ = 6 structure of 3 may be interpreted as a stratagem to avoid short F・ ・ ・O contacts, in contrast to the Z′ = 1 structures of 4 - 6, which exhibit hydrogen-bonded ion catemers similar to the catemer of 3, and two halogen bonds C-X・ ・ ・O=S per formula unit

scholarly journals Weak interactions in the crystal structures of two indole derivatives

2016 ◽  
Vol 72 (7) ◽  
pp. 964-968
Author(s):  
Jamie R. Kerr ◽  
Laurent Trembleau ◽  
John M. D. Storey ◽  
James L. Wardell ◽  
William T. A. Harrison
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Weak Interactions ◽  
Indole Derivatives ◽  
Halogen Bonds ◽  
Π Interactions ◽  
Π Stacking

We describe the syntheses and crystal structures of two indole derivatives, namely a second monoclinic polymorph of ethyl 5-chloro-1H-indole-2-carboxylate C11H10ClNO2, (I), and ethyl 5-chloro-3-iodo-1H-indole-2-carboxylate, C11H9ClINO2, (II). In their crystal structures, both compounds form inversion dimers linked by pairs of N—H...O hydrogen bonds, which generateR22(10) loops. The dimers are linked into double chains in (I) and sheets in (II) by a variety of weak interactions, including π–π stacking, C—I...π, C—Cl—π interactions and I...Cl halogen bonds.

scholarly journals The Balance between Hydrogen Bonds, Halogen Bonds, and Chalcogen Bonds in the Crystal Structures of a Series of 1,3,4-Chalcogenadiazoles

Molecules ◽  
2021 ◽  
Vol 26 (14) ◽  
pp. 4125
Author(s):  
Viraj De Silva ◽  
Boris B. Averkiev ◽  
Abhijeet S. Sinha ◽  
Christer B. Aakeröy
Keyword(s):  
Hydrogen Bonding ◽  
Hydrogen Bonds ◽  
Dft Calculations ◽  
Crystal Structures ◽  
Intermolecular Interactions ◽  
Electrostatic Potential ◽  
Intermolecular Forces ◽  
Intermolecular Hydrogen Bonding ◽  
Halogen Bonds ◽  
Target Molecules

In order to explore how specific atom-to-atom replacements change the electrostatic potentials on 1,3,4-chalcogenadiazole derivatives, and to deliberately alter the balance between intermolecular interactions, four target molecules were synthesized and characterized. DFT calculations indicated that the atom-to-atom substitution of Br with I, and S with Se enhanced the σ-hole potentials, thus increasing the structure directing ability of halogen bonds and chalcogen bonds as compared to intermolecular hydrogen bonding. The delicate balance between these intermolecular forces was further underlined by the formation of two polymorphs of 5-(4-iodophenyl)-1,3,4-thiadiazol-2-amine; Form I displayed all three interactions while Form II only showed hydrogen and chalcogen bonding. The results emphasize that the deliberate alterations of the electrostatic potential on polarizable atoms can cause specific and deliberate changes to the main synthons and subsequent assemblies in the structures of this family of compounds.

scholarly journals Successive Crystallization of Organically Templated Uranyl Sulfates: Synthesis and Crystal Structures of [pyH](H3O)[(UO2)3(SO4)4(H2O)2], [pyH]2[(UO2)6(SO4)7(H2O)], and [pyH]2[(UO2)2(SO4)3]

2021 ◽  
Vol 5 (1) ◽  
pp. 5
Author(s):  
Evgeny V. Nazarchuk ◽  
Dmitri O. Charkin ◽  
Oleg I. Siidra
Keyword(s):  
Hydrogen Bonds ◽  
Crystal Structures ◽  
Hydrothermal Treatment ◽  
Mother Liquor ◽  
Hydration Water ◽  
Isothermal Evaporation ◽  
Pyridinium Cations

Three new uranyl sulfates, [pyH](H3O)[(UO2)3(SO4)4(H2O)2] (1), [pyH]2[(UO2)6(SO4)7(H2O)] (2), and [pyH]2[(UO2)2(SO4)3] (3), were produced upon hydrothermal treatment and successive isothermal evaporation. 1 is monoclinic, P21/c, a = 14.3640(13), b = 10.0910(9), c = 18.8690(17) Å, β = 107.795(2), V = 2604.2(4) Å3, R1 = 0.038; 2 is orthorhombic, C2221, a = 10.1992(8), b = 18.5215(14), c = 22.7187(17) Å, V = 4291.7(6) Å3, R1 = 0.030; 3 is orthorhombic, Pccn, a = 9.7998(8), b = 10.0768(8), c = 20.947(2) Å, V = 2068.5(3) Å3, R1 = 0.055. In the structures of 1 and 2, the uranium polyhedra and SO4 tetrahedra share vertices to form ∞3[(UO2)3(SO4)4(H2O)2]2− and ∞3[(UO2)6(SO4)7(H2O)]2− frameworks featuring channels (12.2 × 6.7 Å in 1 and 12.9 × 6.5 Å in 2), which are occupied by pyridinium cations. The structure of 3 is comprised of ∞2[(UO2)2(SO4)3]2− layers linked by hydrogen bonds donated by pyridinium cations. The compounds 1–3 are formed during recrystallization processes, in which the evaporation of mother liquor leads to a stepwise loss of hydration water.

scholarly journals Cooperation/Competition between Halogen Bonds and Hydrogen Bonds in Complexes of 2,6-Diaminopyridines and X-CY3 (X = Cl, Br; Y = H, F)

Symmetry ◽  
2021 ◽  
Vol 13 (5) ◽  
pp. 766
Author(s):  
Barbara Bankiewicz ◽  
Marcin Palusiak
Keyword(s):  
Complex Formation ◽  
Hydrogen Bonds ◽  
Dft Calculations ◽  
Electrostatic Interactions ◽  
Dipole Moments ◽  
Main Role ◽  
Halogen Bonds ◽  
Topological Parameters ◽  
Leading Role ◽  
The Impact

The DFT calculations have been performed on a series of two-element complexes formed by substituted 2,6-diaminopyridine (R−PDA) and pyridine (R−Pyr) with X−CY3 molecules (where X = Cl, Br and Y = H, F). The primary aim of this study was to examine the intermolecular hydrogen and halogen bonds in the condition of their mutual coexistence. Symmetry/antisymmetry of the interrelation between three individual interactions is addressed. It appears that halogen bonds play the main role in the stabilization of the structures of the selected systems. However, the occurrence of one or two hydrogen bonds was associated with the favourable geometry of the complexes. Moreover, the impact of different substituent groups attached in the para position to the aromatic ring of the 2,6-diaminopyridine and pyridine on the character of the intermolecular hydrogen and halogen bonds was examined. The results indicate that the presence of electron-donating substituents strengthens the bonds. In turn, the presence of electron-withdrawing substituents reduces the strength of halogen bonds. Additionally, when hydrogen and halogen bonds lose their leading role in the complex formation, the nonspecific electrostatic interactions between dipole moments take their place. Analysis was based on geometric, energetic, and topological parameters of the studied systems.

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