Home Crystal structure of 4-bromobenzyl (Z)-N-(adamantan-1-yl)morpholine-4-carbothioimidate, C22H29BrN2OS
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Crystal structure of 4-bromobenzyl (Z)-N-(adamantan-1-yl)morpholine-4-carbothioimidate, C22H29BrN2OS

  • Hanan A. Al-Ghulikah , Hazem A. Ghabbour , Edward R.T. Tiekink and Ali A. El-Emam EMAIL logo
Published/Copyright: May 13, 2019

Abstract

C22H29BrN2OS, triclinic, P1̄ (no. 2), a = 7.1722(3) Å, b = 10.2350(4) Å, c = 14.8756(6) Å, α = 73.607(2)°, β = 84.7020(10)°, γ = 88.7210(10)°, V = 1043.11(7) Å3, Z = 2, Rgt(F) = 0.0467, wRref(F2) = 0.0870, T = 296(2) K.

CCDC no.: 1554481

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Colourless block
Size:0.44 × 0.15 × 0.11 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:2.09 mm−1
Diffractometer, scan mode:Bruker APEX-II, φ and ω
θmax, completeness:33.8°, >99%
N(hkl)measured, N(hkl)unique, Rint:29518, 8337, 0.066
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 5322
N(param)refined:244
Programs:Bruker [1], SHELX [2], [3], WinGX/ORTEP [4]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

AtomxyzUiso*/Ueq
Br11.20216(3)0.36045(2)0.54756(2)0.02552(6)
S10.55468(6)0.14208(4)0.28378(3)0.01351(9)
O11.14454(17)0.01989(12)0.07956(9)0.0182(3)
N10.87498(18)0.15584(14)0.17322(9)0.0113(3)
N20.73859(18)0.36611(14)0.16104(9)0.0118(3)
C10.7319(2)0.23870(16)0.19672(11)0.0108(3)
C20.7038(2)0.03562(17)0.36897(12)0.0163(3)
H2A0.6252−0.02590.41890.020*
H2B0.7840−0.01920.33800.020*
C30.8239(2)0.11681(16)0.41139(11)0.0140(3)
C41.0159(2)0.12684(18)0.38708(12)0.0161(3)
H41.06970.08430.34350.019*
C51.1287(2)0.19982(18)0.42722(12)0.0166(3)
H51.25710.20630.41070.020*
C61.0475(2)0.26246(17)0.49185(12)0.0168(4)
C70.8560(3)0.25542(18)0.51715(12)0.0196(4)
H70.80270.29820.56070.023*
C80.7465(2)0.18307(18)0.47583(12)0.0181(4)
H80.61770.17860.49150.022*
C91.0376(2)0.22895(17)0.11485(12)0.0146(3)
H9A1.07590.30090.14000.018*
H9B1.00530.26980.05110.018*
C101.1958(2)0.12835(18)0.11499(13)0.0163(3)
H10A1.30420.17550.07670.020*
H10B1.23050.09110.17870.020*
C110.9860(2)−0.05104(17)0.13587(13)0.0175(4)
H11A1.0193−0.09180.19950.021*
H11B0.9510−0.12380.11080.021*
C120.8209(2)0.04254(17)0.13826(12)0.0142(3)
H12A0.78030.07790.07560.017*
H12B0.7175−0.00770.17910.017*
C130.6064(2)0.46803(16)0.18183(11)0.0111(3)
C140.5903(2)0.47399(17)0.28468(11)0.0137(3)
H14A0.54250.38790.32610.016*
H14B0.71290.48950.30230.016*
C150.4107(2)0.44547(17)0.15427(12)0.0139(3)
H15A0.42020.44130.08970.017*
H15B0.36000.35940.19430.017*
C160.6827(2)0.60650(16)0.11913(12)0.0140(3)
H16A0.80540.62230.13670.017*
H16B0.69660.60480.05400.017*
C170.4575(2)0.58975(17)0.29518(12)0.0166(4)
H170.44660.59230.36080.020*
C180.2631(2)0.56547(18)0.26744(13)0.0192(4)
H18A0.17900.63790.27510.023*
H18B0.21210.47980.30800.023*
C190.2790(2)0.56173(18)0.16454(13)0.0177(4)
H190.15490.54610.14680.021*
C200.3584(3)0.69740(18)0.10043(13)0.0196(4)
H20A0.27460.77100.10590.024*
H20B0.36930.69490.03550.024*
C210.5518(2)0.72245(17)0.12900(12)0.0164(4)
H210.60270.80920.08810.020*
C220.5343(3)0.72672(17)0.23178(12)0.0178(4)
H22A0.65600.74420.24970.021*
H22B0.45060.79950.23900.021*

Source of material

4-Bromobenzyl bromide (500 mg, 2.0 mmol) and anhydrous potassium carbonate (276 mg, 2 mmol) were added to an anhydrous acetone (15 mL) solution of N-(adamantan-1-yl)morpholine-4-carbothioamide (560 mg, 2 mmol) and the mixture was heated under reflux for 4 h. The solvent was then distilled off in vacuo and the residue was washed with water (20 mL), dried and crystallized from ethanol to yield 380 mg (85%) of the title compound as colourless crystals. M. pt.: 371–373 K. Single crystals suitable for X-ray analysis were obtained by the slow evaporation of a CHCl3/EtOH (v:v) solution of the compound held at room temperature. 1H NMR (CDCl3, 700.17 MHz): δ [p.p.m.] 1.63–1.69 (m, 6H, adamantane-H), 1.84 (m, 6H, adamantane-H), 2.01 (s, 3H, adamantane-H), 3.25–3.30 (m, 4H, morpholine-H), 3.69–3.74 (m, 4H, morpholine-H), 3.91 (s, 2H, benzylic-CH2), 7.17 (d, 2H, Ar—H, J = 7.5 Hz), 7.45 (d, 2H, Ar—H, J = 7.5 Hz). 13C{1H} NMR (CDCl3, 176.08 MHz): δ [p.p.m.] 29.59, 29.94, 36.57, 54.69 (adamantane-C), 37.76 (benzylic-CH2), 49.70, 66.85 (morpholine-C), 121.00, 130.51, 137.26, 146.91 (Ar—C), 156.46 (C=N). ESI-MS, m/z (Rel. Int.): 449.4 [M + 2 + H, 100]+, 451.4 [M + 2 + H, 98]+.

Experimental details

The C-bound H atoms were geometrically placed (C—H = 0.93–0.98 Å) and refined as riding with Uiso(H) = 1.2Ueq(C).

Comment

The highly lipophilic adamantane cage constitutes a core pharmacophore of several drugs [5]. After the development of amantadine as efficient anti-viral drug against influenza A viruses [6] and as anti-parkinsonian drug [7], adamantane derivatives attracted the attention of several drug manufacturers for the development of more potent and safer bioactive agents. As a result of this intensive search, several adamantane derivatives were developed and are currently used as effective therapeutic agents. Among the major biological activities displayed by adamantane based derivatives, the anti-viral [8], anti-cancer [9], anti-bacterial and anti-fungal [10], anti-malarial [11] and anti-diabetic [12] activities are the most important ones. It is also well known that isothiourea derivatives are of particular value in medicinal chemistry, exhibiting significant anti-viral [13], anti-cancer [14] and anti-bacterial [15] activities. The title compound was very recently prepared among a series of adamantane-isothiourea hybrid derivatives, which displayed marked, broad spectrum anti-bacterial activity [16].

The molecule [systematic name: 4-bromophenyl]methyl-N-(tricyclo[3.3.1.13,7]decan-1-yl)morpholine-4-carboximidothioate] is shown in the figure (70% displacement ellipsoids) and is constructed about a planar CN2S chromophore with the r.m.s. deviation of the C1, N1, N2 and S1 atoms being 0.008 Å. The configuration about the C1=N2 bond [1.262(2) Å] is Z, and the conformation of the morpholinyl ring is that of a chair. The bromobenzyl group is orientated to lie over the remaining part of the molecule but is slightly inclined towards the morpholinyl group with the C2—S1—C1—N1 torsion angle being 46.80(13)° compared with the C2—S1—C1—N2 torsion angle of −130.63(15)°.

With the exception of weak π—π stacking between centrosymmetrically related molecules [inter-centroid Cg(C3—C8)⋯Cg(C3—C8)i distance = 3.8802(11) Å for symmetry operation i: 2 – x, − y, 1 − z], the molecular packing is devoid of directional interactions. This observation is highlighted by the high contribution to the calculated Hirshfeld surface by H⋯H contacts, that is 68.5% [17], [18]. The next highest contribution to surface of 14.0% is due to Br⋯H/H⋯Br contacts but, none of these occur within the sum of the respective van der Waals radii.

The structure of the present compound has two literature precedents, that is with 4-nitrobenzyl [16] and 3,5-trifluorobenzyl [19] groups. The superimposition of the three molecules reveals a very high degree of concordance in the molecular structures with any minor variations in conformation being associated only with the relative orientations of the substituted benzyl groups. Bond lengths and other geometric parameters are in the expected ranges for such a compound [20].

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Received: 2019-03-23
Accepted: 2019-04-24
Published Online: 2019-05-13
Published in Print: 2019-09-25

©2019 Hanan A. Al-Ghulikah et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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  50. Crystal structure of 4-bromobenzyl (Z)-N-(adamantan-1-yl)morpholine-4-carbothioimidate, C22H29BrN2OS
  51. Crystal structure of (4S,4aS,6aR,6bR,12aS,12bR,14aS,14bR)-3,3,6a,6b,9,9,12a-heptamethyloctadecahydro-1H,3H-4,14b-ethanophenanthro[1,2-h]isochromene-1(6bH)-one, C30H48O2
  52. Crystal structure of 3,5-bis(trifluoromethyl)benzyl (Z)-N′-(adamantan-1-yl)-4-phenylpiperazine-1-carbothioimidate, C30H33F6N3S
  53. The crystal structure of 3-methoxyphenanthridin-6(5H)-one, C14H11NO2
  54. Crystal structure of 4-(5,5-difluoro-1,3,7,9-tetramethyl-3H,5H-5λ4-dipyrrolo[1,2-c:2′,1′-f][1,3,2]diazaborinin-10-yl)pyridin-1-ium tetraiodidoferrate(III), C18H19BF2FeI4N3
  55. Crystal structure of 2-(3-methoxyphenyl)-3-((phenylsulfonyl)methyl)imidazo[1,2-a]pyridine, C21H18N2O3S
  56. Crystal structure of [(2-(2-chlorophenyl)-5-ethyl-1,3-dioxane-5-carboxylato-κ2O,O′) (5,5,7,12,12,14-hexamethyl-1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N′′,N′′′)]nickel(II) perchlorate, C29H50Cl2N4NiO8
  57. Crystal structure of (Z)-6-(dimethylamino)-3,3-bis(4-(dimethylamino)phenyl)-2-(2-(quinoxalin-2-ylmethylene)hydrazinyl)-2,3-dihydroinden-1-one, C35H35N7O
  58. 5-Methyl-N′-[5-methyl-1-(4-methylphenyl)-1H-1,2,3-triazole-4-carbonyl]-1-(4-methylphenyl)-1H-1,2,3-triazole-4-carbohydrazide, C22H22N8O2
  59. Crystal structure of 2,3-dichloro-6-methoxyquinoxaline, C9H6Cl2N2O
  60. Synthesis and crystal structure of 7-chloro-2-(ethylsulfinyl)-6-fluoro-3-(1H-pyrazole-1-yl)-4H-thiochromen-4-one, C13H10FN3OS2
  61. Crystal structure of 4-ethylpiperazine-1-carbothioic dithioperoxyanhydride, C14H26N4S4
  62. Crystal structure of 2-(2-(6-methylpyridin-2-yl)naphthalen-1-yl)pyrimidine, C20H15N3
  63. The crystal structure of N′-((1E,2E)-4-(7-methoxy-2-oxo-2H-chromen-8-yl)-2-methylbut-2-en-1-ylidene)-3-methylbenzohydrazide, C23H22N2O4
  64. Crystal structure of catena-poly[(μ2-isophthalato-κ2O:O′)-(2,5-di(pyrazin-2-yl)-4,4′-bipyridine-κ3N,N′,N′′)zinc(II)] — water (2/5), C26H21N6O6.5Zn
  65. Crystal structure of (3E,5E)-3,5-bis(3-nitrobenzylidene)-1-((4-(trifluoromethyl)phenyl)sulfonyl)piperidin-4-one — dichloromethane (2/1), C53H38Cl2F6N6O14S2
  66. Crystal structure of (μ2-oxido)-bis(N,N′-o-phenylenebis(salicylideneiminato))diiron(III) — N,N′-dimethylformamide, C47H43Fe2N4O9
  67. Crystal structure of N1,N3-bis(2-hydroxyethyl)-N1, N1,N3,N3-tetramethylpropane-1,3-diaminium dibromide, C11H28Br2N2O2
  68. Crystal structure of (E)-N-(4-chlorophenyl)-1-(pyridin-2-yl)methanimine, C12H9ClN2
  69. Crystal structure of 8-bromo-6-oxo-2-phenyl-6H-pyrrolo[3,2,1-ij]quinoline-5-carbaldehyde, C18H11BrNO2
  70. Crystal structure of 1,4-bis(2-azidoethyl)piperazine-1,4-diium dichloride trihydrate, C8H18N8Cl2 ⋅ 3 H2O
  71. Crystal structure of (E)-4-bromo-N-(pyridin-2-ylmethylene)aniline, C12H9BrN2
  72. Crystal structure of bis[(2-(3-bromophenyl)-5-methyl-1,3-dioxane-5-carboxylato-κ-O)-(5,5,7,12,12,14-hexamethyl-1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N′′,N′′′)]nickel(II), C40H60Br2N4NiO8
  73. The crystal structure of (1E,2E)-2-methyl-4-((7-oxo-7H-furo[3,2-g]chromen-9-yl)oxy)but-2-enal O-isonicotinoyl oxime–trichloromethane (3/1), C67H49Cl3N6O18
  74. Crystal structure of 3-(2-ethoxy-2-oxoethyl)-1-methyl-1H-imidazol-3-ium hexafluoridophosphate(V), C8H13F6N2O2P
  75. Crystal structure of bis[(2-(2-bromophenyl)-5-ethyl-1,3-dioxane-5-carboxylato-κO)-(5,5,7,12,12,14-hexamethyl-1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N′′,N′′′)]nickel(II) hemihydrate C42H65Br2N4NiO8.5
  76. The crystal structure of N-(7-(4-fluorobenzylidene)-3-(4-fluorophenyl)-3,3a,4,5,6,7-hexahydro-2H-indazole-2-carbonothioyl)benzamide, C28H23F2N3OS
  77. The crystal structure of N1,N4-bis(pyridin-3-yl)cyclohexane-1,4-dicarboxamide, C18H20N4O2
  78. Crystal structure of (E)-2-(3,6-bis(ethylamino)-2,7-dimethyl-9H-xanthen-9-yl)-N′-((6-methylpyridin-2-yl)methylene)benzohydrazide – methanol (1/1), C34H37N5O3
  79. Crystal structure of 2-oxo-1-(pyrimidin-5-ylmethyl)-3-(3-(trifluoromethyl)phenyl)-1,2-dihydro-5l4-pyrido[1,2-a]pyrimidin-4-olate, C20H13F3N4O2
  80. Crystal structure of poly[(μ3-9H-carbazole-3,6-dicarboxylato-κ3O1: O2: O3)(μ2-4-(pyridin-4-yl)pyridine-κ2N1:N1′)zinc(II)], C19H11N2O4Zn
  81. Crystal structure of (E)-N′-((1,8-dihydropyren-1-yl)-methylene)picolinohydrazide, C23H15N3O
  82. Crystal structure of catena-poly{[μ2-1,2-bis(diphenylphosphino)ethane]dichloridocadmium(II)}, C26H24CdCl2P2
  83. Crystal structure of the 1:2 co-crystal between N,N′-bis(4-pyridylmethyl)oxalamide and acetic acid as a dihydrate, C14H14N4O2⋅2 C2H4O2⋅2 H2O
  84. Crystal structure of the co-crystal N,N′-bis(3-pyridylmethyl)oxalamide acetic acid (1/2), C14H14N4O2⋅2C2H4O2
  85. Crystal structure of the co-crystal N,N′-bis(4-pyridylmethyl)oxalamide and 2,3,5,6-tetrafluoro-1,4-di-iodobenzene (1/1), C14H14N4O2⋅C6F4I2
  86. Crystal structure of the co-crystal 4-[(4-carboxyphenyl)disulfanyl]benzoic acid–(1E,4E)-1-N,4-N-bis(pyridin-4-ylmethylidene)cyclohexane-1,4-diamine (1/1), C14H10O4S2⋅C18H20N4
  87. Crystal structure of hexacarbonyl-bis(μ2-di-n-propyldithiocarbamato-κ3S,S′:S3S:S:S′)-di-rhenium(I), C20H28N2O6Re2S4
  88. Crystal structure of fac-tricarbonyl-morpholine-κN-(morpholinocarbamodithioato-κ2S,S′)rhenium(I), C12H17N2O5ReS2
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