Home The crystal structure of a matrine derivative, 13-(methylamine-1-yl) carbodithioate matrine, C17H27N3OS2
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The crystal structure of a matrine derivative, 13-(methylamine-1-yl) carbodithioate matrine, C17H27N3OS2

  • He Hui-Qing , Dong Fang-Yun , Zhang Han-Hui , Ye Jing-Min , Tan Chun-Can , Jiang Xu-Hong , Zheng Zi-Zhao , Lv Xiao-Jing and Cheng Xing-An ORCID logo EMAIL logo
Published/Copyright: February 25, 2020

Abstract

C17H27N3OS2, monoclinic, P21 (no. 4), a = 8.8052(10) Å, b = 10.8860(10) Å, c = 18.6705(2) Å, β = 99.2730(10)°, V = 1766.24(3) Å3, Z = 4, Rgt(F) = 0.0298, wRref(F2) = 0.0802, T = 100.00(10) K.

CCDC no.: 1965227

The asymmetric unit of 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:0.20 × 0.20 × 0.20 mm
Wavelength:Cu Kα radiation (1.54184 Å)
μ:2.79 mm−1
Diffractometer, scan mode:XtaLAB AFC12, ω
θmax, completeness:73.9°, 98%
N(hkl)measured, N(hkl)unique, Rint:16370, 6521, 0.035
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 6505
N(param)refined:418
Programs:CrysAlisPRO [1], SHELX [2], [3]
Table 2:

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

AtomxyzUiso*/Ueq
N11.9628(2)0.39803(19)1.12643(10)0.0168(4)
C22.1160(3)0.4028(3)1.17039(12)0.0222(5)
H2A2.11460.35811.21520.027*
H2B2.14190.48761.18280.027*
C32.2384(3)0.3483(3)1.13118(13)0.0240(5)
H3A2.21680.26201.12150.029*
H3B2.33830.35481.16160.029*
C42.2409(3)0.4166(3)1.05961(13)0.0225(5)
H4A2.31070.37521.03230.027*
H4B2.27870.49951.06980.027*
C52.0797(2)0.4216(2)1.01401(12)0.0161(4)
H52.08370.48050.97460.019*
C61.9600(2)0.4690(2)1.05852(11)0.0141(4)
H61.98390.55491.07140.017*
C71.7978(2)0.4638(2)1.01310(11)0.0144(4)
H71.79760.51520.97000.017*
C81.6809(3)0.5175(2)1.05698(13)0.0183(5)
H8A1.70270.60391.06640.022*
H8B1.57810.51061.02940.022*
C91.6890(3)0.4489(3)1.12877(12)0.0213(5)
H9A1.62100.48781.15800.026*
H9B1.65490.36481.11950.026*
C101.8524(3)0.4496(2)1.16966(12)0.0214(5)
H10A1.88190.53331.18310.026*
H10B1.85640.40221.21390.026*
C111.7637(2)0.3300(2)0.98755(11)0.0135(4)
H111.78350.27751.03070.016*
C121.5999(2)0.3045(2)0.95060(12)0.0162(4)
H12A1.52800.34340.97780.019*
H12B1.58090.21670.95000.019*
C131.5741(2)0.3534(2)0.87327(12)0.0159(4)
H131.60180.44060.87440.019*
C141.6801(3)0.2840(2)0.83034(12)0.0168(4)
H14A1.64430.19990.82330.020*
H14B1.67410.32150.78280.020*
C151.8469(3)0.2832(2)0.86740(12)0.0144(4)
N161.8773(2)0.29631(18)0.94019(10)0.0143(4)
C172.0354(2)0.2968(2)0.97905(12)0.0167(5)
H17A2.10520.27690.94550.020*
H17B2.04630.23411.01640.020*
O181.94890(18)0.26599(16)0.82991(9)0.0192(4)
S191.37632(6)0.33770(5)0.82914(3)0.01834(14)
C201.2936(3)0.4801(2)0.84908(11)0.0161(4)
S211.39293(7)0.60406(5)0.88123(3)0.02273(14)
N221.1412(2)0.47562(19)0.83279(10)0.0175(4)
H221.09870.40560.82170.021*
C231.0425(3)0.5824(2)0.83271(12)0.0208(5)
H23A1.05100.63270.79130.031*
H23B1.07340.62890.87630.031*
H23C0.93770.55620.83050.031*
N240.5130(2)0.53400(18)0.36795(10)0.0170(4)
C250.3537(3)0.5460(3)0.33135(14)0.0254(5)
H25A0.34220.50290.28530.030*
H25B0.33130.63210.32130.030*
C260.2384(3)0.4951(3)0.37592(15)0.0292(6)
H26A0.25470.40750.38320.035*
H26B0.13470.50760.35030.035*
C270.2581(3)0.5604(3)0.44934(14)0.0246(5)
H27A0.19160.52240.47960.029*
H27B0.22770.64570.44220.029*
C280.4255(3)0.5537(2)0.48776(13)0.0166(4)
H280.43530.60870.52980.020*
C290.5368(2)0.5995(2)0.43843(11)0.0141(4)
H290.51750.68710.42900.017*
C300.7046(2)0.5841(2)0.47575(11)0.0138(4)
H300.71810.63330.52030.017*
C310.8131(3)0.6357(2)0.42696(13)0.0201(5)
H31A0.79830.72380.42190.024*
H31B0.91880.62090.44920.024*
C320.7831(3)0.5757(3)0.35202(13)0.0244(5)
H32A0.84470.61580.32020.029*
H32B0.81250.48980.35600.029*
C330.6132(3)0.5866(3)0.32020(12)0.0233(5)
H33A0.58750.67260.31180.028*
H33B0.59450.54470.27380.028*
C340.7341(2)0.4484(2)0.49811(11)0.0139(4)
H340.70490.39790.45460.017*
C350.8988(2)0.4159(2)0.53018(11)0.0148(4)
H35A0.96800.44420.49820.018*
H35B0.90920.32740.53500.018*
C360.9408(2)0.4762(2)0.60437(12)0.0170(4)
H360.92120.56450.59880.020*
C370.8364(3)0.4244(3)0.65472(12)0.0219(5)
H37A0.87040.34180.66880.026*
H37B0.84820.47400.69840.026*
C380.6676(3)0.4199(2)0.62242(12)0.0174(5)
N390.6279(2)0.41769(18)0.54955(10)0.0151(4)
C400.4660(2)0.4242(2)0.51616(12)0.0171(4)
H40A0.40150.40220.55170.021*
H40B0.44650.36600.47640.021*
O410.5709(2)0.41293(18)0.66373(9)0.0249(4)
S421.14168(6)0.45448(5)0.64259(3)0.01768(13)
C431.2118(3)0.6073(2)0.65654(11)0.0177(5)
S441.10382(7)0.73384(5)0.64499(4)0.02557(15)
N451.3627(2)0.6074(2)0.67861(11)0.0209(4)
H451.41050.53830.68100.025*
C461.4517(3)0.7179(3)0.69895(16)0.0305(6)
H46A1.43530.77560.65950.046*
H46B1.55900.69750.70970.046*
H46C1.41950.75380.74100.046*

Source of material

Carbon disulfide (2.0 mL) was added to a mixture of water (2.0 mL) and methylamine (2.0 mL). After vigorously stirring at 60 °C for 1 hour, sophoroline (0.31 g) and water (0.2 mL) were added. The reaction mixture was heated for 12 h. After steaming and concentrating, methanol (10.0 mL) was added while stirring. The insoluble impurities were removed by filtration and the filtrate was concentrated to give a yellow oil. The residue was purified with column chromatography on silica gel using ethyl acetate/ethanol (V/V = 10/1) as eluent. Crystallization was carried out by adding ethanol/petroleum ether (1:4), and finally colourless block crystals suitable for X-ray diffraction were obtained in a yield of about 85%.

Experimental details

Hydrogen atoms were placed in calculated positions and were refined in the riding model approximation.

Comment

Matrine is an alkaloid-based broad-spectrum pesticide with insecticidal, bactericidal and acaricidal activities. It’s also the main bioactive component of traditional Chinese herb Sophora flavescens, Sophora alopecuroides, and Sophora subprostrara [4], [5], [6]. Although matrine is a widely used botanical pesticide, it still has a significant gap in activity compared with chemical pesticides. Currently, the main application of matrine in agriculture is synergistic with other active compounds [7], [8], [9]. Structural modification is a commonly used technique for improving the activity of natural products [10], [11]. It is reported that chloroquinoline-modified matrine has a good insecticidal and acaricidal activity [12]. Furthermore, matrine ester exhibits better agricultural activity [13]. Carbon disulfide, amines and methyl compounds are the raw materials and intermediates of common pesticides. Therefore, introducing these active groups to the skeleton of matrine is a potential way to increase its pesticidal activity.

As shown in the figure, carbon disulfide and methylamine were introduced at the C-13 position of matrine forming the bonds C13—S19 [1.810(2) Å] and N22—C23 [1.452(3) Å] with the angle of C20—S19—C13 [102.63(11)°] and C20—N22—C23 [123.6(2)°]. All bond lengths and angles of this Z′ = 2 structure are within the norm and in good agreement with those of a closely related structure [14]. The crystal packing is sustained by N—H⋯O, C—H⋯S and C—H⋯O hydrogen bonds. A series of assays to investigate the agricultural acitivities of this new matrine derivative is planned as part of future studies.

Acknowledgements

This work was supported by the National Natural Science Foundation of China (No.21406274), Guangdong Special commissioners of science and technology (KA1810303), Guangdong Quality Engineering Project and Teaching Team Project (KA190573931, KA190574204) and National Undergraduate Training Program for Innovation and Entrepreneurship (201811347001).

References

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Received: 2019-12-09
Accepted: 2020-02-05
Published Online: 2020-02-25
Published in Print: 2020-04-28

©2020 He Hui-Qing et al., published by De Gruyter.

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

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  56. Crystal structure of dimethylbis(diisopropyldithiocarbamato-κ2S,S′)tin(IV), C16H34N2S4Sn
  57. Crystal structure of diisopropyl 2,5-dihydroxycyclohexa-1,4-diene-1,4-dicarboxylate, C14H20O6
  58. The synthesis and crystal structure of ethyl (E)-1-(2,6-dichloro-4-(trifluoromethyl)phenyl)-5-((2-methoxybenzylidene)amino)-4-((trifluoromethyl)sulfinyl)-1H-pyrazole-3-carboxylate, C22H15N3Cl2F6O4S
  59. The crystal structure of a matrine derivative, 13-(methylamine-1-yl) carbodithioate matrine, C17H27N3OS2
  60. Crystal structure of bis(2-hydroxy-6-((phenylimino)methyl)phenolato-κ2N,O)copper(II), C26H20CuN2O4
  61. The crystal structure of 2-p-fluorophenyl-5-dihydroxymethyl-1,3,4-oxadiazole, C9H7FN2O3
  62. Crystal structure of dichloridobis(4-chlorophenyl-κC1)(1,10-phenanthroline-κ2N,N′)tin(IV), C24H16Cl4N2Sn
  63. Crystal structure of bis{bromido-triphenyltin(IV)}(μ2-[4,4′-bipyridine]1,1′-dioxide-κ2O:O′), C46H38Br2N2O2Sn2
  64. Crystal structure of 2-(5-chloro-quinolin-8-yloxy)-N-quinolin-8-yl-acetamide, C20H14N3O2Cl
  65. Crystal structure of bis(N-(1-(3-ethylpyrazin-2-yl)ethylidene)-3-hydroxy-2-naphthohydrazonato-κ3N,N′,O)cobalt(II) — dimethylformamide (1/1), C41H41N9O5Co
  66. Crystal structure of bis[2-(1-(3-ethylpyrazin-2-yl)ethylidene)-1-tosylhydrazin-1-ido-κ3-N,N′,O]copper(II), C30H34N8O4S2Cu
  67. Crystal structure of (2-p-tolylpyrimidine-κ2C,N)(triphenylphosphane-κP) palladium(II), C29H24ClN2PPd
  68. Halogen bonding in crystal structure of bis(1,4,7,10-tetraoxacyclododecane-κ4O,O′,O′′,O′′′)cesium triiodide, C16H32CsI3O8
  69. The synthesis and crystal structure of N-(3-cyano-1-(2,6-dichloro-4-(trifluoromethyl)phenyl)-4-(trifluoromethylsulfinyl)-1H-pyrazol-5-yl)-2-phenylacetamide, C20H10N4Cl2F6O2S
  70. The crystal structure of 4-(trifluoromethyl)nicotinic acid, C7H4F3NO2
  71. Crystal structure of 3-(2-methylbenzyl)thiazolidin-2-one, C11H13ONS
  72. The crystal structure of 2,2,2-trifluoro-1-(isoquinolin-1-yl)ethane-1,1-diol, C11H8F3NO2
  73. The crystal structure of 3-bromoisonicotinic acid, C6H4BrNO2
  74. The crystal structure of 5-nitropicolinic acid monohydrate, C6H6N2O5
  75. The crystal structure of 3-(4-hydroxybenzyl)-1,5-dioxaspiro[5.5]undecane-2,4-dione, C16H18O5
  76. Crystal structure of [[Mo3Se7(S2CNEt2)3]2(μ-Se)] ⋅ 2(C6H4Cl2), C42H68Cl4Mo6N6S12Se15
  77. Crystal structure of (E)-4-hydroxy-3-((5-phenyl-1,3,4-oxadiazol-2-yl)thio)pent-3-en-2-one, C13H12N2O3S
  78. The crystal structure of (2,3-dioxo-5,6:13,14-dibenzo-9,10-benzo-1,4,8,11-7, 11-diene-κ4N,N′,N′′,N′′′)-nickel(II), Ni(C22H14N4O2)
  79. Crystal structure of 3-(1-benzyl-2-ethyl-4-nitro-1H-imidazol-5-ylthio)-propanoic acid, C15H17N3O4S
  80. The crystal structure of dichlorobis(2-(dicyclohexylphosphino)-2′,4′,6′-tri-i-propyl-1,1′-biphenyl) palladium(II)-dichloroform, C68H100Cl8P2Pd
  81. Crystal structure and antimicrobial properties of (1,4,7,10-tetraoxacyclododecane-κ4O,O′,O′′,O′′′)cesium(I) pentaiodide, C16H32CsI5O8
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