Home Physical Sciences Crystal structure of di-μ-nicotinato-κ2N:O; κ2O:N-bis-[aqua-bis(benzyl)(nicotinato-κ2O,O′)tin(IV)], C52H48N4O10Sn2
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Crystal structure of di-μ-nicotinato-κ2N:O; κ2O:N-bis-[aqua-bis(benzyl)(nicotinato-κ2O,O′)tin(IV)], C52H48N4O10Sn2

  • Kong Mun Lo , See Mun Lee and Edward R.T. Tiekink EMAIL logo
Published/Copyright: September 29, 2020

Abstract

C52H48N4O10Sn2, triclinic, P1̄ (no. 2), a = 8.4845(1) Å, b = 9.2814(1) Å, c = 15.5517(2) Å, α = 83.005(1)°, β = 81.918(1)°, γ = 74.690(1)°, V = 1164.87(2) Å3, Z = 1, Rgt(F) = 0.0173, wRref(F2) = 0.0453, T = 100(2) K.

CCDC no.: 2012194

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 prism
Size:0.11 × 0.08 × 0.07 mm
Wavelength:Cu Kα radiation (1.54184 Å)
μ:9.07 mm−1
Diffractometer, scan mode:XtaLAB Synergy, ω
θmax, completeness:67.1°, >99%
N(hkl)measured, N(hkl)unique, Rint:27999, 4156, 0.036
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 4058
N(param)refined:313
Programs:CrysAlisPRO [1], SHELX [2], [3], WinGX/ORTEP [4]
Table 2:

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

AtomxyzUiso*/Ueq
Sn0.66898(2)0.50068(2)0.25614(2)0.01211(5)
O10.77407(15)0.51536(14)0.10986(8)0.0165(3)
O20.57406(15)0.70805(14)0.14928(8)0.0168(3)
O30.67098(15)0.39034(13)0.39351(8)0.0145(3)
O40.85574(16)0.16602(15)0.39145(8)0.0209(3)
O1W0.84655(16)0.28408(15)0.23436(8)0.0192(3)
H1W0.861(3)0.237(2)0.2838(9)0.029*
H2W0.9337(19)0.279(3)0.2002(13)0.029*
N10.86193(19)0.75449(17)−0.13240(10)0.0178(3)
N20.56121(18)0.31654(16)0.66122(10)0.0138(3)
C10.6800(2)0.6428(2)0.09213(12)0.0141(4)
C20.6949(2)0.71874(19)0.00210(11)0.0138(4)
C30.8423(2)0.6875(2)−0.05167(12)0.0165(4)
H30.9335670.615357−0.0303380.020*
C40.7313(2)0.8554(2)−0.16177(12)0.0185(4)
H40.7435110.902209−0.2192760.022*
C50.5801(2)0.8945(2)−0.11258(12)0.0187(4)
H50.4910060.967146−0.1355600.022*
C60.5613(2)0.8254(2)−0.02904(12)0.0167(4)
H60.4589850.8502350.0064920.020*
C70.7549(2)0.2685(2)0.42943(12)0.0137(4)
C80.7297(2)0.25006(19)0.52733(11)0.0132(3)
C90.5862(2)0.32714(19)0.57387(11)0.0130(3)
H90.5020510.3902460.5422690.016*
C100.6823(2)0.2264(2)0.70494(12)0.0148(4)
H100.6665900.2183580.7668660.018*
C110.8284(2)0.1450(2)0.66368(12)0.0155(4)
H110.9104990.0821570.6967580.019*
C120.8528(2)0.1566(2)0.57362(12)0.0144(4)
H120.9518980.1018450.5437620.017*
C130.8391(2)0.6103(2)0.29358(12)0.0186(4)
H13A0.7809240.6761760.3397220.022*
H13B0.9281790.5327380.3195600.022*
C140.9160(2)0.7023(2)0.22279(12)0.0163(4)
C151.0568(2)0.6360(2)0.16963(13)0.0193(4)
H151.1026730.5309230.1780940.023*
C161.1312(3)0.7207(2)0.10463(13)0.0254(4)
H161.2270100.6734730.0690960.030*
C171.0658(3)0.8739(3)0.09160(14)0.0297(5)
H171.1173610.9324180.0477470.036*
C180.9248(3)0.9415(2)0.14283(15)0.0299(5)
H180.8787121.0464560.1335890.036*
C190.8503(2)0.8563(2)0.20776(14)0.0230(4)
H190.7533030.9037570.2423560.028*
C200.4728(2)0.4124(2)0.22963(12)0.0162(4)
H20A0.3831630.4964420.2094080.019*
H20B0.5137630.3460860.1817240.019*
C210.4043(2)0.3259(2)0.30670(12)0.0165(4)
C220.2649(2)0.3926(2)0.36056(13)0.0205(4)
H220.2098610.4945230.3472310.025*
C230.2054(2)0.3122(2)0.43332(14)0.0259(4)
H230.1103670.3593520.4694030.031*
C240.2843(3)0.1628(2)0.45358(14)0.0267(5)
H240.2441440.1077300.5035680.032*
C250.4217(3)0.0953(2)0.40035(14)0.0240(4)
H250.475735−0.0069760.4136180.029*
C260.4813(2)0.1754(2)0.32778(13)0.0203(4)
H260.5760160.1273530.2917950.024*

Source of material

Dibenzyltin dichloride was synthesized by the direct reaction of benzyl chloride (Merck) and metallic tin powder (Merck) in toluene according to a literature procedure [5]. Dibenzyltin oxide was prepared from the 1:1 molar reaction of dibenzyltin dichloride with sodium hydroxide. Dibenzyltin oxide (0.64 g, 2.0 mmol) and nicotinic acid (Sigma-Aldrich; 0.48 g, 4.0 mmol) were heated in 95% ethanol (50 mL) and stirred for 3 h. After filtration, the filtrate was evaporated slowly until colourless crystals were formed.

Yield: 0.15 g (47%). M.pt (Mel-temp II digital melting point apparatus): 459–461 K. IR (Bruker Vertex 70v FTIR Spectrophotometer; cm−1): 1598 (s) ν(C=O), 1471 (m) ν(C—C), 1029 (m) ν(C—O), 694 (m) ν(Sn—N), 581 (m) ν(Sn—O). 1H NMR (Bruker Ascend 400 MHz NMR spectrometer, chemical shifts relative to Me4Si, CDCl3 solution at 50 °C; ppm): 2.20 (s, 4H, CH2), 4.58 (b, 2H, OH2), 7.27–7.94 (m, 10H, Ph—H), 8.05–8.78 (m, 8H, Ph—H). 13C{1H} NMR (as for 1H NMR): 32.3 (CH2), 119.9, 120.3, 120.6, 122.2, 123.1, 123.5, 123.7, 123.9, 124.1, 124.4, 132.1, 133.6, 146.3, 148.0 (Ph—C), 166.0 (CO), 169.2 (CO).

Experimental details

The C-bound H atoms were geometrically placed (C—H = 0.95–0.99 Å) and refined as riding with Uiso(H) = 1.2Ueq(C). The O-bound H atoms were refined with O—H = 0.84 ± 0.01 Å and with Uiso(H) = 1.5Ueq(O).

Comment

It is well-established that organotin carboxylates adopt a very wide range of structural motifs in their crystals [6], often depending in an capricious fashion, upon the remote substituents bound to the carboxylate ligands. Molecules of the general formula R2Sn(O2CR′)2(OH2) are based on a pentagonal-bipyramidal geometry with the chelating carboxylate ligands and water molecule contributing O atoms to the pentagonal plane, and the tin-bound organic substituents occupying axial positions. This is the common motif as found in (c-C6H11)2Sn(O2CMe)2(OH2) [7] and several other examples reported over the years [8], [9], [10], [11], [12], [13]. While it is normal for new structural motifs to occur when potential N-donor atoms are incorporated in the carboxylate ligand [6], this was not the case for (4-ClC6H4CH2)2Sn(O2CC5H4N-3)2(OH2) [14], which was found to adopt the common structural motif. However, when the chloro substituent in the benzyl group is replaced by a bromo substituent, a new, binuclear motif is found whereby the pyridyl-N of one carboxylate ligand, now coordinating via one O atom only, bridges a centrosymmetrically-related Sn atom [15], again leading to a pentagonal-bipyramidal geometry, albeit one based on a trans-C2NO4 donor set. In this context and in continuation of recent studies of pyridyl-substituted carboxylates [16], the crystal and molecular structures of the “parent” (C6H5CH2)2Sn(O2CC5H4N-3)2(OH2), (I), is described herein.

The molecular structure of binuclear (I) is shown in the figure (70% displacement ellipsoids; unlabelled atoms are related by the symmetry operation 1 − x, 1 − y, 1 − z). The binuclear molecule in (I) is disposed about a centre of inversion, and two distinct modes of coordination of the carboxylate ligands are evident. The O1-carboxylate ligand chelates a Sn atom, forming Sn—O bond lengths [Sn—O1 2.3253(12) Å & Sn—O2 2.4276(12) Å] that differ by about 0.1 Å. The O3-carboxylate ligand is bridging, coordinating the Sn atom via one O atom [Sn—O3 = 2.2542(12) Å & Sn⋯O4 = 3.6515(13) Å] and the centrosymmetrically-related Sn atom via the 3-pyridyl-N2 atom [Sn—N2 = 2.5337(15) Å]. The NO4, approximate pentagonal plane, is completed by the water-O1w atom [Sn—O1w = 2.2021(13) Å] and the axially-coordinated methylene-C atoms [Sn—C13 = 2.1484(18) Å & Sn—C20 = 2.1470(18) Å] complete the trans-C2NO4 donor set; the C13—Sn—C20 angle = 171.93(7)°. The different modes of coordination exhibited by the carboxylate ligand are reflected in the associated C—O bond lengths, being equivalent for the O1-carboxylate ligand [C1—O1 = 1.263(2) Å & C1—O2 = 1.259(2) Å] and disparate for the monodentate O3-carboxylate residue with the shorter bond associated with the formal C7=O4 bond [C7—O3 = 1.277(2) Å & C7—O4 = 1.245(2) Å]. An intramolecular water-O—H⋯O(carboxylate) hydrogen bond is noted [O1w—H1w⋯O4: H1w⋯O4 = 1.722(14) Å, O1w⋯O4 = 2.5557(18) Å with angle at H1w = 169(2)°], i.e. involving the non-coordinating O4 atom.

The most prominent feature of the molecular packing of (I) is the formation of linear, supramolecular chains mediated by water-O—H⋯N(pyridyl) hydrogen bonds [O1w—H2w⋯N1i: H2w⋯N1i = 1.870(19) Å, O1w⋯N1i = 2.707(2) Å with angle at H2w = 173(2)° for symmetry operation (i) 2 − x, 1 − y, −z] and parallel to [−1 0 1]. The chains pack without directional interactions between them.

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: 2020-06-15
Accepted: 2020-06-25
Published Online: 2020-09-29
Published in Print: 2020-10-27

©2020 Kong Mun Lo et al., published by De Gruyter, Berlin/Boston

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

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  45. Crystal structure of (2-amino-5-bromo-3-iodophenyl)(3-(4-chlorophenyl)oxiran-2-yl)methanone, C15H10BrClINO2
  46. Synthesis and crystal structure of 3-octyl-5,5-diphenylimidazolidine-2,4-dione, C23H28N2O2
  47. Synthesis and crystal structure of 2-azido-N-(4-nitrophenyl)acetamide, C8H7N5O3
  48. Crystal structure of tert-butyl (1S,2R,5R)-2-(hydroxymethyl)-4-(4-methoxyphenyl)-6-oxa-3-azabicyclo[3.1.0]hexane-3-carboxylate, C17H23NO5
  49. Crystal structure of 4-[(4-methoxy-2-nitrophenyl)carbamoyl]butanoic acid, C12H14N2O6
  50. Crystal structure of 3-ethyl-1-[(E)-[(2E)-3-phenylprop-2-en-1-ylidene]amino]thiourea, C12H15N3S
  51. Crystal structure of 4,4′-bipyridin-1,1′-dium poly[bis(μ4-benzene-1,3,5-triyltris(hydrogen phosphonato-κ4O:O′:O′′:O′′′))zinc(II)], C11H11NO9P3Zn
  52. Crystal structure of (μ2-1,1′-bis(diphenylphosphino)butane-κ2P,P′)-bis[(Z)-N-(3-fluorophenyl)-O-methylthiocarbamato-κS]-di-gold(I), C44H42Au2F2N2O2P2S2
  53. Crystal structure of (μ2-1,1′-bis(diphenylphosphino)hexane-κ2P,P′)-bis[(Z)-N-(3-fluorophenyl)-O-methylthiocarbamato-κS]digold(I), C46H46Au2F2N2O2P2S2
  54. Crystal structure of tetrakis (N-(2-hydroxyethyl)-N-isopropylcarbamodithioato-κS,S′)-(μ2(2-(pyridin-4-yl)vinyl)pyridine-κN,N′)dicadmium(II), C36H58Cd2N6O4S8
  55. Crystal structure of 4-(2-(benzo[b]thiophen-2-yl)-3,3,4,4,5,5-hexafluorocyclopent-1-en-1-yl)-1,5-dimethyl-1H-pyrrole-2-carbonitrile, C20H12F6N2S
  56. Crystal structure of bis(octahydrocyclopenta[c]pyrrolium)pentachlorobismuthate(III), (C7NH14)2BiCl5
  57. The crystal structure of diaqua-tris(nitrato-κ2O,O′)-bis(4,4,5,5-tetramethyl-2-(p-pyridyl)imidazoline-1-oxyl 3-oxide-κN)samarium(III), C24H36N9O15Sm
  58. Synthesis and crystal structure of methyl 2-(2-((tert-butoxycarbonyl)amino)phenyl)-2-(4-oxo-4H-chromen-3-yl)acetate, C23H23NO6
  59. Crystal structure of O-hexyl benzoylcarbamothioate, C14H19NO2S
  60. Crystal structure of chlorido-(O-methyl phenylcarbamothioamide-κS)-bis(triphenylphosphane-κP)silver(I), C44H39AgClNOP2S
  61. Crystal structure of chlorido-(O-ethyl phenylcarbamothioamide-κS)-bis(triphenylphosphane-κP)-silver(I), C45H41AgClNOP2S
  62. Crystal structure of 4-[(2-methoxyphenyl)carbamoyl]butanoic acid, C12H15NO4
  63. Crystal structure of ethyl 4-methyl-2-oxo-5-phenyl-1,3,4-oxadiazinane-3-carboxylate, C13H16N2O4
  64. Crystal structure of catena-poly[diaqua(μ2-2-(hydroxymethyl)-1H-imidazole-4,5-dicarboxylato)cadmium(II)], C6H8CdN2O7
  65. Crystal structure of (1S)-N-(chloromethyl)-1-((4S,6aR,8aS, 8bR,9aR)-4-methoxy-6a,8a-dimethyl-1,3,4, 5,6,6a,6b,7,8,8a,9a,10,10a,10b-tetradecahydro-8bH-naphtho[2′,1′:4,5] indeno[1,2-b]oxiren-8b-yl)-N-methylethan-1-amine, C24H46ClNO5
  66. Crystal structure of 4-[(3,5-dichlorophenyl)carbamoyl]butanoic acid, C11H11Cl2NO3
  67. Crystal structure of (2Z)-2-amino-3-[(E)-[(2,4-dihydroxyphenyl)methylidene]-amino]but-2-enedinitrile, C11H8N4O2
  68. Crystal structure of 3-methyl-1-[(E)-(4-phenylbutan-2-ylidene)amino]thiourea, C12H17N3S
  69. Crystal structure of carbonyl{hydridotris[3-phenyl-5-methylpyrazol-1-yl]borato-κ3N,N′N′′}copper(I), C31H28BCuN6O
  70. Crystal structure of ethane-1,2-diylbis(diphenylphosphine oxide) – dihydrogenperoxide (1/2), C26H28O6P2
  71. Crystal structure of 2-(pyridin-2-ylamino)pyridinium chloride dibenzyldichlorostannane, [C10H10N3]Cl, C14H14Cl2Sn
  72. Crystal structure of 4-[(3-methoxyphenyl)carbamoyl]butanoic acid, C12H15NO4
  73. Crystal structure of dichlorido-bis(tri-4-tolylphosphane oxide-κO)-di(4-chlorophenyl-κC)tin(IV), C54H50Cl4O2P2Sn
  74. Crystal structure of dichloridodimethylbis(tri-4-tolylphosphane oxide-κO)-tin(IV), C44H48Cl2O2P2Sn
  75. Crystal structure of chlorido(2-methylquinolin-8-olato-κ2N,O)-bis(4-tolyl-κC)tin(IV), C24H22ClNOSn
  76. Crystal structure of (E)-dichloro(1-chloro-3-methoxyprop-1-en-2-yl)(4-methoxyphenyl)-λ4-tellane, C11H13Cl3O2Te
  77. Crystal structure of bis{N-methyl-N′-[3-(4-methoxyphenyl)-1-methylpropane-1-ylidene]carbamohydrazonothioato}zinc(II), C26H36N6O2S2Zn
  78. Crystal structure of (2-carboxy-4-(3-carboxy-5-carboxylatophenoxy)benzoato-κ2O,O′)bis(1,10-phenantroline-κ2N,N′)cobalt(II), C40H24N4O9Co
  79. The crystal structure of (3S,8R,10R,14R)-17-((2S,5S)-5-(2-hydroxypropan-2-yl)-2-methyltetrahydrofuran-2-yl)-4,4,8,10,14-pentamethyl-12-oxohexadecahydro-1H-cyclopenta[a]phenanthren-3-yl acetate, C32H52O5
  80. Crystal structure of (μ2-1,1′-bis(diphenylphosphino)ferrocene-κ2P,P′)-bis[(Z)N-(3-fluorophenyl)-O-methylthiocarbamato-S]digold(I) chloroform solvate, C50H42Au2F2FeN2O2P2S2, CHCl3
  81. Crystal structure of poly[bis(μ2-1,4-di(1H-imidazol-1-yl)benzene-κ2N:N′)-(μ2-tetraoxidomolybdato(VI)-κ2O:O′)cobalt(II)], C24H20N8O4MoCo
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