Home Crystal structure of aqua-chlorido-(4-fluorobenzyl-κC)-(N′-(4-methoxy-2-oxidobenzylidene)-3-hydroxy-2-naphthohydrazidato-κ3N,O,O′)tin(IV), C26H22ClFN2O5Sn
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Crystal structure of aqua-chlorido-(4-fluorobenzyl-κC)-(N′-(4-methoxy-2-oxidobenzylidene)-3-hydroxy-2-naphthohydrazidato-κ3N,O,O′)tin(IV), C26H22ClFN2O5Sn

  • Kong Mun Lo , See Mun Lee and Edward R.T. Tiekink ORCID logo EMAIL logo
Published/Copyright: September 27, 2019

Abstract

C26H22ClFN2O5Sn, triclinic, P1̄ (no. 2), a = 7.1473(6) Å, b = 12.8246(11) Å, c = 13.2899(11) Å, α = 97.541(5)°, β = 94.503(6)°, γ = 96.247(5)°, V = 1195.13(18) Å3, Z = 2, Rgt(F) = 0.0325, wRref(F2) = 0.0756, T = 296(2) K.

CCDC no.: 1952923

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:Yellow block
Size:0.32 × 0.28 × 0.15 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:1.23 mm−1
Diffractometer, scan mode:Bruker SMART APEX, ω
θmax, completeness:28.5°, 99%
N(hkl)measured, N(hkl)unique, Rint:12290, 5968, 0.029
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 5146
N(param)refined:335
Programs:CrysAlisPRO [1], SHELX [2], [3], WinGX/ORTEP [4]
Table 2:

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

AtomxyzUiso*/Ueq
Sn0.17145(2)0.24966(2)0.56818(2)0.01331(6)
Cl1−0.13126(9)0.29841(5)0.62791(5)0.02105(14)
F10.8756(2)0.03862(14)0.82503(14)0.0299(4)
N10.3158(3)0.48145(17)0.57788(17)0.0161(5)
N20.2130(3)0.39877(17)0.51106(16)0.0148(4)
O10.3387(3)0.35449(14)0.68504(14)0.0164(4)
O20.4360(3)0.67479(15)0.64115(15)0.0198(4)
H2O0.384(4)0.6208(16)0.606(2)0.030*
O30.0639(3)0.19064(14)0.42245(14)0.0189(4)
O4−0.2405(3)0.16470(15)0.08665(14)0.0196(4)
O1W0.4512(3)0.22028(15)0.50724(14)0.0178(4)
H1W0.551(3)0.232(3)0.543(2)0.027*
H2W0.480(4)0.250(2)0.4592(17)0.027*
C10.3754(4)0.4510(2)0.6643(2)0.0146(5)
C20.4864(4)0.5323(2)0.7409(2)0.0148(5)
C30.5101(4)0.6420(2)0.7280(2)0.0172(5)
C40.6047(4)0.7162(2)0.8032(2)0.0206(6)
H40.6152320.7874050.7946610.025*
C50.6865(4)0.6866(2)0.8935(2)0.0196(6)
C60.7898(4)0.7614(2)0.9728(2)0.0253(6)
H60.8006410.8331540.9667300.030*
C70.8730(4)0.7291(3)1.0573(2)0.0282(7)
H70.9409920.7790671.1077160.034*
C80.8575(4)0.6213(3)1.0693(2)0.0306(7)
H80.9152550.6005061.1273510.037*
C90.7574(4)0.5468(3)0.9956(2)0.0269(7)
H90.7472400.4755671.0039140.032*
C100.6692(4)0.5778(2)0.9067(2)0.0199(6)
C110.5662(4)0.5025(2)0.8291(2)0.0171(5)
H110.5518360.4314020.8377890.020*
C120.1439(4)0.4228(2)0.42441(19)0.0143(5)
H120.1651750.4931910.4139440.017*
C130.0390(4)0.3501(2)0.34483(19)0.0143(5)
C140.0048(4)0.2392(2)0.3451(2)0.0154(5)
C15−0.0908(4)0.1751(2)0.2588(2)0.0155(5)
H15−0.1142780.1022230.2580730.019*
C16−0.1505(4)0.2206(2)0.17452(19)0.0156(5)
C17−0.1188(4)0.3304(2)0.1734(2)0.0173(5)
H17−0.1605630.3598260.1166290.021*
C18−0.0258(4)0.3929(2)0.2569(2)0.0162(5)
H18−0.0040300.4656420.2564750.019*
C19−0.2692(5)0.0518(2)0.0802(2)0.0287(7)
H19A−0.1494820.0256370.0910300.043*
H19B−0.3285140.0217150.0138810.043*
H19C−0.3488190.0323690.1312720.043*
C200.1733(4)0.1078(2)0.6372(2)0.0177(5)
H20A0.0848650.1095720.6889630.021*
H20B0.1285220.0476050.5856170.021*
C210.3647(4)0.0911(2)0.6855(2)0.0154(5)
C220.4631(4)0.0114(2)0.6426(2)0.0189(6)
H220.412135−0.0308480.5824080.023*
C230.6378(4)−0.0063(2)0.6885(2)0.0212(6)
H230.704526−0.0589980.6593750.025*
C240.7070(4)0.0569(2)0.7781(2)0.0199(6)
C250.6152(4)0.1371(2)0.8232(2)0.0202(6)
H250.6666000.1786420.8838250.024*
C260.4434(4)0.1542(2)0.7755(2)0.0182(6)
H260.3799050.2087270.8040210.022*

Source of material

The melting point of the compound was measured on a Mel-temp II digital melting point apparatus and was uncorrected. The IR spectrum was recorded on a Perkin-Elmer RX1 spectrophotometer as a Nujol mull in a KBr cell from 4000 to 400 cm−1. The 1H NMR spectrum was recorded in DMSO-d6 solution on a Jeol JNM-ECA 400 MHz NMR spectrometer with chemical shifts relative to tetramethylsilane.

(E)-N′-[1-(4-Methoxy-2-hydroxybenzylidene]-3-hydroxy-2-naphthohydrazide was synthesised from 4-methoxy-2-hydroxybenzaldehyde (Merck) and 3-hydroxy-2-napthoic hydrazide (Sigma Aldrich) in a 1:1 molar ratio. Di(4-fluorobenzyl)tin dichloride was synthesised by the direct reaction of 4-fluorobenzyl chloride (Merck) and metallic tin powder (Merck) in toluene according to a literature procedure [5]. Di(4-fluorobenzyl)tin dichloride (0.41 g, 1 mmol) and (E)-N′-[1-(4-methoxy-2-hydroxybenzylidene]-3-hydroxy-2-naphthohydrazide (0.34 g, 1 mmol) were dissolved in methanol (25 mL) and refluxed for 3 h. After filtration, the filtrate was evaporated slowly until yellow crystals formed. The crystals were filtered, washed with a minimum amount of methanol-ethanol and air-dried. Yield: 0.10 g (16%). M.pt: 433–435 K. IR (cm−1): 3391 (br) ν(O—H), 1638 ν(C=N), 1603 ν(C=N—N=C), 1032 ν(C—O), 466 ν(Sn—O). 1H NMR (DMSO-d6, δ (ppm)): δ 2.80 (s, 2H, CH2), 3.45 (s, 2H, OH2), 3.88 (s, 3H, OCH3), 6.70 (d, 1H, J = 8.80 Hz, Ph-H), 7.28–7.45 (m, 4H, Ph—H), 7.50–7.66 (m, 4H, Ph—H), 7.73–7.84 (m, 3H, Ph—H), 8.50 (s, 1H, Ph—H), 8.58 (s, 1H, CH), 11.58 (s, 1H, OH).

Experimental details

The C-bound H atoms were geometrically placed (C—H = 0.93–0.97 Å) and refined as riding with Uiso(H) = 1.2–1.5Ueq(C). The O-bound H-atoms were located in a difference Fourier map but were refined with a distance restraint O—H = 0.82 ± 0.01 Å, and with Uiso(H) set to 1.5Ueq(O). Owing to poor agreement, four reflections, i.e. (7 −5 6), (−1 −7 15), (−1 −7 16) and (1 −6 3), were omitted from the final cycles of refinement.

Comment

Organotin compounds have been long-known as potential chemotherapeutic agents for the treatment of a variety of cancers [6]. In this context, molecules related to the title organotin compound with a tridentate hydrazone ligand, have been screened for biological activity [7], [8], [9]. In continuation of these and structural studies of these organotin hydrazone species [10], [11], [12], [13], the title compound, (I), was investigated by X-ray crystallography.

The molecular structure of (I) is shown in the figure (70% displacement ellipsoids). The tin atom is coordinated by the di-negative, tridentate ligand, via the oxide-O1, phenoxide-O3 and imine-N2 atoms, a chlorido ligand, a methylene-carbon atom of the organic substitutent and a water ligand. The resultant coordination geometry is based on an octahedron with the three trans angles deviating significantly from the ideal 180° angle: O1—Sn—O3 = 156.75(7)°, N2—Sn—C20 = 171.06(9)° and Cl1—Sn—O1w = 174.40(5)°. The O,N,O donor atoms of the tridentate ligand occupy meridional positions in the octahedral environment. Deviations are largely related to the acute chelate angles formed in the five-membered, O1—Sn—N2 = 74.21(8)°, and six-membered, O3—Sn—N2 = 84.92(8)°, rings. The Sn—O3(phenoxide) bond length [2.0419(18) Å] is considerably shorter than the Sn—O1(oxide) distance [2.1117(18) Å] and this difference is reflected in the associated C1—O1 [1.306(3) Å] and C14—O3 [1.334(3) Å] bond lengths. Considering the bonding character over the O1—C1—N1—N2—C12 chromophore, the C1—N1 bond [1.315(3) Å] is comparatively short and is only marginally longer than the formally C12—N2 imine bond [1.304(3) Å]. These observations suggest considerable delocalisation of π-electron density over this chromophore; the Sn—Cl1, Sn—N2, Sn—C20 and Sn—O1w bond lengths are 2.4770(7), 2.148(2), 2.143(3) and 2.266(2) Å, respectively. The five-membered chelate ring is planar with the r.m.s. deviation of the five fitted atoms being 0.011 Å. By contrast, the six-membered ring is best described as having an envelope conformation with the O3 atom lying 0.196(3) Å out of the plane defined by the remaining five atoms [r.m.s. deviation = 0.052 Å]; the r.m.s. deviation of the six atoms comprising the chelate ring = 0.075 Å. The dihedral angle between the best planes through the chelate rings is 6.15(8)°, indicating that the rings are almost co-planar. The dihedral angle between the five-membered ring and the least-squares plane through the appended naphthyl ring = 9.30(9)°, a relationship that allows for the formation of an intramolecular hydroxyl-O—H⋯N(hydrazone) hydrogen bond [O2—H2o⋯N1: H2o⋯N1 = 1.78(2) Å, O2⋯N1 = 2.543(3) Å with angle at H2o = 154(2)°]. The dihedral angle between the six-membered ring and attached phenyl ring is 3.55(9)°, also consistent with a co-planar relationship. Finally, the dihedral angle between each of the best planes through the five-and six-membered chelate rings and that through the benzyl ring are 58.57(8) and 62.36(8)°, respectively, indicating a splayed disposition.

The presence of a N,O,O tridentate ligand, with the pendent hydroxy group as in (I), with tin bound to chloride, an organic substituent and a water molecule is a rare structural motif, being observed once previously, namely in aqua-(n-butyl)-chlorido-(2-hydroxy-N-(2-oxy-3-methoxybenzylidene)benzenecarbohydrazonato)tin(IV), isolated as an ethanol solvate [14].

The most prominent supramolecular contacts in the molecular packing are aqua-O—H⋯Cl [O1w—H1w⋯Cl1i: H1w⋯Cl1i = 2.47(2) Å, O1w⋯Cl1i = 3.265(2) Å with angle at H1w = 167(3)° for symmetry operation (i) 1 + x, y, z] and aqua-O—H⋯O(hydroxy) [O1w—H2w⋯O2ii: H2w⋯O2ii = 1.85(2) Å, O1w⋯O2ii = 2.657(3) Å with angle at H2w = 174(2)° for (ii) 1 − x, 1 − y, 1 − z]. These combine to give rise to a double chain, with a linear topology along the a-axis. The phenyl ring of the benzyl substituent is folded towards the water molecule and shields the water-oxygen atom from participating in an additional (acceptor) hydrogen bonding interaction. The chains are linked into a double layer in the ab-plane by very weak methyl-C—H⋯F interactions [C19—H19a⋯F1iii: H19a⋯F1iii = 2.45 Å, C19⋯F1iii = 3.374(4) Å with angle at H19a = 161° for (iii) 1 − x, −y, 1 − z]. While there are π⋯π stacking and C—H⋯π interactions apparent in the packing, these occur within the layers, which stack along the c-axis direction without directional interactions between them.

To analyse the molecular packing further, an analysis of the calculated Hirshfeld surfaces along with two-dimensional (overall and delineated) fingerprint plots ensued, using Crystal Explorer 17 [15] following standard procedures [16]. The most dominant contacts contributing to the surface are those involving hydrogen, accounting for nearly 90% of all contacts. Important contributions come from C⋯H/H⋯C [23.5%], O⋯H/H⋯O [11.4%], Cl⋯H/H⋯Cl [9.8%] and F⋯H/H⋯F [7.8%] contacts but, the prevalent contacts are of the type H⋯H [35.9%]. The next most important contacts are of the type O⋯C/C⋯O [2.6%].

Acknowledgements

Sunway University Sdn Bhd is thanked for financial support of this work through Grant no. STR-RCTR-RCCM-001-2019.

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Received: 2019-08-01
Accepted: 2019-09-11
Published Online: 2019-09-27
Published in Print: 2019-12-18

©2019 Kong Mun Lo 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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  37. Crystal structure of 2-[(1E)-{[1,3-dihydroxy-2-(hydroxymethyl)propan-2-yl]iminiumyl}methyl]-5-(dodecyloxy)benzen-1-olate, C23H39NO5
  38. Crystal structure of 12-(2-hydroxybenzoyl)benzo[f]pyrido[1,2-a]indole-6,11-dione, C23H13NO4
  39. Crystal structure of chlorido-(4-chloro-6-(p-tolyl)pyrimidine-κ2C,N)-(triphenylphosphane-κP)palladium(II), C29H23Cl2N2PPd
  40. Crystal structure of catena-poly[diaqua-bis(3,4,5,6-tetrabromo-carboxybenzoato-κ1O)-(μ2-4,4′-bipyridine-κ2N:N′)cobalt(II)], C26H14Br8CoN2O10
  41. Crystal structure of catena-poly[dibenzyl-dichlorido-(μ2-[4,4′-bipyridine]1,1′-dioxide-κ2O:O′)tin(IV)], C24H22Cl2N2O2Sn
  42. Crystal structure of benzyl-chlorido-(4-chloro-N-[(2-oxidophenyl)methylidene]benzenecarbohydrazonato)-methanol-tin(IV), C22H20Cl2N2O3Sn
  43. Crystal structure of catena-poly[triaqua-(1,3-di(1H-imidazol-1-yl)benzene-κ2N:N′)-(3-nitrophthalato-κ1O)cobalt(II)] — water (2/3), C20H22N5O10.5Co
  44. Crystal structure of (3R,5R,8R,9R,10R,12R,13R,14R)-4,4,8,10,14-pentamethyl-17-((R)-2,6,6-trimethyltetrahydro-2H-pyran-2-yl)hexadecahydro-1H-cyclopenta[a]phenanthrene-3,12-diol, C30H52O3
  45. Crystal structure of 3-(3-(4-carboxyphenyl)ureido)pyridin-1-ium perchlorate, C26H24Cl2N6O14
  46. Crystal structure of 8-hydroxy-2-methylquinolin-1-ium chloride dihydrate, C10H14ClNO3
  47. Crystal structure of (dibenzyl sulphoxide-κO)dibromido-bis(4-bromobenzyl-κC)tin(IV), C28H26Br4OSSn
  48. Crystal structure of bromido-tri(4-chlorophenyl-κ1C)-(ethanol-κ1O)tin(IV) — 4,4′-dimethyl-2,2′-bipyridine (2/1), C52H48Br2Cl6N2O2Sn2
  49. Crystal structure of 2-butyl-6-(ethylamino)-1H-benzo[de]isoquinoline-1,3(2H)-dione, C18H20N2O2
  50. Crystal structure of (4-chloro-N-[(2-oxido-5-chlorophenyl)methylidene] benzene-carbohydrazonato-κ3N,O,O′)bis(2-fluorobenzyl)tin(IV), C28H20Cl2F2N2O2Sn
  51. Crystal structure of aqua-chlorido-(4-fluorobenzyl-κC)-(N′-(4-methoxy-2-oxidobenzylidene)-3-hydroxy-2-naphthohydrazidato-κ3N,O,O′)tin(IV), C26H22ClFN2O5Sn
  52. Crystal structure of catena-poly[tri(4-chlorophenyl)-(μ2-hydroxido)tin(IV)] – 2-propanol (1/1), C21H21Cl3O2Sn
  53. Crystal structure of bromido-dimethyl-4-tolyl-(triphenylphosphine oxide)tin(IV), C27H28BrOPSn
  54. Crystal structure of 2-(bis(2-hydroxyethyl)ammonio)ethane-1-sulfonate, C6H15NO5S
  55. Crystal structure of bis[triaqua-(μ2-1,2-di(4-pyridyl)ethylene-κ2N:N′)-(4-sulfonatobenzoato-κ2O,O′)zinc(II)], C13H15NO8SZn
  56. Crystal structure of 2-((2-(3-hydroxy-7-methylene-2,3-dihydro-7H-furo[3,2-g]chromen-2-yl)propan-2-yl)oxy)-6-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol – a marmesin derivative, C20H24O10
  57. Crystal structure of octa(4-chlorobenzyl)-dichlorido-bis(μ2-methanolato)-bis(μ3-oxo)-tetratin(IV), C58H54Cl10O4Sn4
  58. Crystal structure of iodido-triphenyl-(triphenylphosphine oxide)tin(IV), C36H30IOPSn
  59. Crystal structure of dichlorido-bis(4-methylphenyl-κC)-bis(triphenylarsine oxide-κO)tin(IV), C50H44As2Cl2O2Sn
  60. Crystal structure of 4-benzyl-1-oxo-N-phenethyl-1H-[1,4]oxazino [4,3-b]indazole-3-carboxamide, C26H21N3O3
  61. Crystal structure of bis{(N-[(5-chloro-2-oxidophenyl)methylidene]-2-hydroxybenzenecarbohydrazonato)-dioxo-molybdenum(VI)}(μ2-4,4′-bipyridine), C38H26Cl2Mo2N6O10
  62. Crystal structure of dichlorido-octamethyl-bis(μ3-oxido)-bis(μ2-2-(phenylamino)ethanolato-κ2O:O)tetratin(IV), C24H44Cl2N2O4Sn4
  63. The crystal structure of 1-(2-(2-(imidazo[1,5-a]pyridine-4-ium)ethoxy)ethyl)-imidazo[1,5-a]pyridine-4-ium bis(hexafluorophosphate) — acetonitrile (1/1), C18H20ON4F12P2
  64. Crystal structure of cyclo[tetra(μ2-cyanido)-tetracyanido-bis(1,4,7,10-tetraazacyclododecane-κ4N,N′,N′′,N′′′)dinickel(II)dipalladium(II)] hexahydrate, C24H52N16Ni2O6Pd2
  65. Crystal structure of (dimethyl sulfoxide)-dioxido-[2-hydroxy-N′-(4-oxo-4-phenylbutan-2-ylidene)benzohydrazidato κ3N,O,O′]molybdenum(VI), C19H20MoN2O6S
  66. Crystal structure of bis(acetylacetonato-κ2O,O′)-(ethanolamine-κ2N,O)copper(II), C14H25CuNO5
  67. Crystal structure of chlorido-diphenyl-(isopropyl(propyl)carbamodithioato-κ2S,S′)tin(IV), C19H24ClNS2Sn
  68. The crystal structure of bis(imidazole-1-yl)methane monohydrate, C7H10N4O
  69. The crystal structure of bis(4-nitroimidazole-1-1yl)methane, C7H6N6O4
  70. Crystal structure of di(naphthalen-2-yl)sulfane, C20H14S
  71. Crystal structure of 3-acetyl-6-bromo-4-hydroxy-2H-chromen-2-one, C11H7BrO4
  72. Crystal structure of N′2,N′6-bis((E)-1-(pyrazin-2-yl)ethylidene)pyridine-2,6-dicarbohydrazide — methanol (1/2), C21H25N9O4
  73. The crystal structure of 3-nitro-4-(p-tolylamino)-2H-chromen-2-one, C16H12N2O4
  74. The crystal structure of 1,2-bis((4-methoxyphenyl)ethynyl)benzene, C24H18O2
  75. Crystal structure of a low-temperature (100 K) polymorph of catena-poly[(μ2-4,4′-bipyridine-κ2N,N′)-bis(O,O′-diethyldithiophosphato-κ1S)zinc(II)], C18H28N2O4P2S4Zn
  76. The pseudosymmetric low temperature polymorph of catena-poly[(μ2-4,4′-bipyridyl-κN,N′)-bis(O,O′-diethyldithiophosphato-κS)-cadmium(II)], {C18H28CdN2O4P2S4}n
  77. Crystal structure of 3-iodophthalic acid, C8H5IO4
  78. The crystal structure of tert-butyl (tert-butoxy(oxo)methyl)(5-bromo-2-fluorophenyl)carbamate, C16H21BrFNO4
  79. The crystal structure of bis(μ2-5,7-dichloroquinolin-8-olato-κ3N,O:O)-tetrakis(5,7-dichloroquinolin-8-olato-κ2N,O)bis(methanol-κ1O)dieuropium(III) — toluene (1/1), C63H39Cl12Eu2N6O8
  80. Crystal structure of dichlorido-(N′-(1-(3-ethylpyrazin-2-yl)ethylidene)-4-methoxybenzohydrazide-κ3N,N′,O)cadmium(II), C16H18N4O2Cl2Cd
  81. A redetermination of the crystal structure of catena-poly[(bis(O,O′-isopropyl dithiophosphato-κ2S,S′)-(μ2-1,2-bis(3-pyridylmethylene)hydrazine-κ2N,N′)cadmium(II)], {C24H38CdN4O4P2S4}n
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