Literature DB >> 22590242

3-[(N-Methyl-anilino)meth-yl]-5-(thio-phen-2-yl)-1,3,4-oxadiazole-2(3H)-thione.

Ali A El-Emam, Mohamed A Al-Omar, Hazem A Ghabbour, Hoong-Kun Fun, Tze Shyang Chia.   

Abstract

In the title compound, C(14)H(13)N(3)OS(2), the thio-phene ring is disordered over two orientations by ca 180° about the C-C bond axis linking the ring to the rest of the mol-ecule, with a site-occupancy ratio of 0.651 (5):0.349 (5). The central 1,3,4-oxadiazole-2(3H)-thione ring forms dihedral angles of 9.2 (5), 4.6 (11) and 47.70 (7)° with the major and minor parts of the disordered thio-phene ring and the terminal phenyl ring, respectively. In the crystal, no significant inter-molecular hydrogen bonds are observed. The crystal packing is stabilized by π-π inter-actions [centroid-centroid distance = 3.589 (2) Å].

Entities:  

Year:  2012        PMID: 22590242      PMCID: PMC3344480          DOI: 10.1107/S1600536812014419

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the biological activity of 1,3,4-oxadiazole derivatives, see: Navarrete-Vázquez et al. (2007 ▶); Kadi et al. (2007 ▶); Padmavathi et al. (2009 ▶); El-Emam et al. (2004 ▶); Al-Deeb et al. (2006 ▶). For the synthesis of the title compound, see: Al-Omar (2010 ▶). For related 1,3,4-oxadiazole structures, see: Fun et al. (2011 ▶); El-Emam et al. (2012 ▶).

Experimental

Crystal data

C14H13N3OS2 M = 303.39 Monoclinic, a = 11.9682 (8) Å b = 7.4526 (5) Å c = 17.0749 (14) Å β = 108.072 (6)° V = 1447.85 (18) Å3 Z = 4 Cu Kα radiation μ = 3.32 mm−1 T = 296 K 0.92 × 0.16 × 0.09 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.150, T max = 0.754 10021 measured reflections 2676 independent reflections 1516 reflections with I > 2σ(I) R int = 0.066

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.156 S = 0.97 2676 reflections 220 parameters H-atom parameters constrained Δρmax = 0.16 e Å−3 Δρmin = −0.20 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812014419/is5107sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812014419/is5107Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812014419/is5107Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C14H13N3OS2F(000) = 632
Mr = 303.39Dx = 1.392 Mg m3
Monoclinic, P21/nCu Kα radiation, λ = 1.54178 Å
Hall symbol: -P 2ynCell parameters from 587 reflections
a = 11.9682 (8) Åθ = 4.0–45.3°
b = 7.4526 (5) ŵ = 3.32 mm1
c = 17.0749 (14) ÅT = 296 K
β = 108.072 (6)°Needle, colorless
V = 1447.85 (18) Å30.92 × 0.16 × 0.09 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer2676 independent reflections
Radiation source: fine-focus sealed tube1516 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.066
φ and ω scansθmax = 69.5°, θmin = 4.0°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −14→14
Tmin = 0.150, Tmax = 0.754k = −8→7
10021 measured reflectionsl = −20→18
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.048H-atom parameters constrained
wR(F2) = 0.156w = 1/[σ2(Fo2) + (0.0811P)2] where P = (Fo2 + 2Fc2)/3
S = 0.97(Δ/σ)max = 0.001
2676 reflectionsΔρmax = 0.16 e Å3
220 parametersΔρmin = −0.20 e Å3
0 restraintsExtinction correction: SHELXTL (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0019 (4)
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes.
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger.
xyzUiso*/UeqOcc. (<1)
S20.86759 (10)0.22270 (15)1.02672 (6)0.0941 (4)
O10.6522 (2)0.3191 (3)0.93576 (13)0.0697 (6)
N10.6491 (2)0.2726 (3)0.80711 (15)0.0627 (7)
N20.7564 (2)0.2228 (3)0.86200 (15)0.0628 (6)
N30.8999 (2)0.2802 (4)0.79288 (16)0.0707 (7)
C10.7617 (3)0.2516 (4)0.94048 (19)0.0672 (8)
C20.5908 (3)0.3288 (4)0.85393 (19)0.0620 (8)
C30.4743 (3)0.4013 (4)0.8291 (2)0.0651 (8)
C40.413 (2)0.451 (3)0.8829 (15)0.093 (8)0.651 (5)
H4A0.43700.43400.93960.111*0.651 (5)
C50.2989 (18)0.542 (3)0.8296 (11)0.083 (5)0.651 (5)
H5A0.24360.59510.85030.100*0.651 (5)
C60.2904 (15)0.533 (2)0.7508 (13)0.092 (5)0.651 (5)
H6A0.22540.57680.70960.110*0.651 (5)
S10.4025 (5)0.4400 (7)0.7304 (4)0.0799 (9)0.651 (5)
S1A0.4022 (12)0.4715 (16)0.8908 (8)0.0785 (19)0.349 (5)
C6A0.293 (3)0.522 (6)0.825 (3)0.125 (17)0.349 (5)
H6AA0.22630.55920.83750.150*0.349 (5)
C5A0.292 (3)0.512 (4)0.745 (2)0.112 (13)0.349 (5)
H5AA0.23220.55080.69950.135*0.349 (5)
C4A0.416 (3)0.420 (5)0.745 (2)0.090 (13)0.349 (5)
H4AA0.44050.38780.70080.108*0.349 (5)
C70.8480 (3)0.1488 (4)0.83120 (19)0.0694 (8)
H7A0.90880.09530.87670.083*
H7B0.81430.05450.79180.083*
C80.9964 (3)0.3838 (6)0.8467 (2)0.0919 (12)
H8A0.99450.50350.82550.138*
H8B1.06970.32800.84920.138*
H8C0.98870.38830.90100.138*
C90.8762 (3)0.2882 (4)0.70804 (19)0.0638 (8)
C100.9562 (3)0.3627 (4)0.6735 (2)0.0806 (10)
H10A1.02800.40500.70730.097*
C110.9293 (5)0.3740 (6)0.5890 (3)0.1074 (15)
H11A0.98380.42490.56690.129*
C120.8256 (6)0.3131 (7)0.5371 (3)0.1167 (17)
H12A0.80900.32180.48030.140*
C130.7459 (4)0.2383 (5)0.5709 (3)0.0997 (14)
H13A0.67440.19650.53630.120*
C140.7697 (3)0.2240 (4)0.6550 (2)0.0766 (9)
H14A0.71500.17170.67640.092*
U11U22U33U12U13U23
S20.0998 (8)0.1138 (8)0.0625 (6)0.0053 (5)0.0162 (5)−0.0036 (5)
O10.0771 (16)0.0794 (14)0.0594 (13)−0.0076 (10)0.0311 (12)−0.0051 (9)
N10.0636 (17)0.0670 (14)0.0627 (15)−0.0058 (12)0.0270 (14)−0.0015 (11)
N20.0631 (18)0.0750 (15)0.0545 (14)−0.0025 (12)0.0245 (14)−0.0021 (11)
N30.0626 (17)0.0918 (18)0.0619 (16)−0.0176 (12)0.0255 (14)−0.0119 (13)
C10.071 (2)0.0719 (19)0.0627 (19)−0.0063 (14)0.0268 (18)−0.0024 (13)
C20.068 (2)0.0644 (18)0.0607 (18)−0.0118 (14)0.0297 (17)−0.0054 (13)
C30.063 (2)0.0739 (19)0.065 (2)−0.0117 (14)0.030 (2)−0.0079 (15)
C40.076 (11)0.096 (9)0.093 (13)−0.001 (6)0.010 (8)−0.011 (6)
C50.092 (12)0.080 (6)0.099 (9)−0.013 (5)0.059 (9)−0.012 (5)
C60.067 (9)0.082 (6)0.105 (11)0.002 (5)−0.002 (7)0.002 (6)
S10.071 (2)0.1025 (17)0.0634 (11)−0.0140 (14)0.0171 (11)−0.0039 (14)
S1A0.082 (4)0.087 (3)0.082 (3)−0.006 (3)0.049 (3)−0.006 (3)
C6A0.044 (17)0.13 (3)0.20 (3)0.002 (14)0.03 (2)−0.03 (2)
C5A0.077 (18)0.18 (3)0.09 (2)−0.040 (14)0.050 (15)0.024 (17)
C4A0.044 (12)0.130 (18)0.11 (3)0.011 (9)0.041 (15)0.031 (12)
C70.070 (2)0.0747 (19)0.067 (2)0.0020 (15)0.0258 (17)0.0004 (15)
C80.077 (3)0.115 (3)0.080 (2)−0.026 (2)0.020 (2)−0.016 (2)
C90.065 (2)0.0672 (17)0.0646 (19)0.0082 (14)0.0283 (17)−0.0042 (13)
C100.088 (3)0.078 (2)0.090 (3)0.0077 (17)0.048 (2)0.0057 (17)
C110.147 (4)0.096 (3)0.109 (4)0.034 (3)0.082 (3)0.026 (3)
C120.175 (5)0.110 (4)0.072 (3)0.050 (3)0.049 (3)0.013 (2)
C130.117 (4)0.099 (3)0.072 (2)0.027 (2)0.014 (3)−0.010 (2)
C140.080 (2)0.080 (2)0.070 (2)0.0079 (17)0.024 (2)−0.0098 (16)
S2—C11.632 (3)C6A—C5A1.35 (6)
O1—C21.364 (3)C6A—H6AA0.9300
O1—C11.382 (4)C5A—C4A1.63 (5)
N1—C21.283 (4)C5A—H5AA0.9300
N1—N21.385 (3)C4A—H4AA0.9300
N2—C11.339 (4)C7—H7A0.9700
N2—C71.464 (4)C7—H7B0.9700
N3—C91.388 (4)C8—H8A0.9600
N3—C71.423 (4)C8—H8B0.9600
N3—C81.455 (4)C8—H8C0.9600
C2—C31.432 (4)C9—C101.386 (4)
C3—C41.388 (19)C9—C141.400 (5)
C3—C4A1.39 (3)C10—C111.379 (5)
C3—S1A1.641 (12)C10—H10A0.9300
C3—S11.663 (6)C11—C121.360 (6)
C4—C51.55 (3)C11—H11A0.9300
C4—H4A0.9300C12—C131.377 (6)
C5—C61.32 (3)C12—H12A0.9300
C5—H5A0.9300C13—C141.378 (5)
C6—S11.641 (19)C13—H13A0.9300
C6—H6A0.9300C14—H14A0.9300
S1A—C6A1.49 (5)
C2—O1—C1106.2 (2)C6A—C5A—C4A107 (3)
C2—N1—N2103.6 (2)C6A—C5A—H5AA126.3
C1—N2—N1112.3 (3)C4A—C5A—H5AA126.3
C1—N2—C7127.7 (3)C3—C4A—C5A102 (2)
N1—N2—C7119.9 (2)C3—C4A—H4AA128.9
C9—N3—C7122.2 (3)C5A—C4A—H4AA128.9
C9—N3—C8120.1 (3)N3—C7—N2112.9 (3)
C7—N3—C8116.7 (3)N3—C7—H7A109.0
N2—C1—O1104.5 (3)N2—C7—H7A109.0
N2—C1—S2131.6 (3)N3—C7—H7B109.0
O1—C1—S2123.9 (2)N2—C7—H7B109.0
N1—C2—O1113.4 (3)H7A—C7—H7B107.8
N1—C2—C3127.3 (3)N3—C8—H8A109.5
O1—C2—C3119.3 (3)N3—C8—H8B109.5
C4—C3—C4A116.9 (19)H8A—C8—H8B109.5
C4—C3—C2124.6 (12)N3—C8—H8C109.5
C4A—C3—C2118.5 (15)H8A—C8—H8C109.5
C4A—C3—S1A115.5 (15)H8B—C8—H8C109.5
C2—C3—S1A126.0 (6)C10—C9—N3121.1 (3)
C4—C3—S1114.3 (12)C10—C9—C14118.1 (3)
C2—C3—S1121.0 (3)N3—C9—C14120.7 (3)
S1A—C3—S1112.7 (6)C11—C10—C9120.1 (4)
C3—C4—C5106.2 (16)C11—C10—H10A119.9
C3—C4—H4A126.9C9—C10—H10A119.9
C5—C4—H4A126.9C12—C11—C10122.1 (4)
C6—C5—C4110.7 (15)C12—C11—H11A119.0
C6—C5—H5A124.7C10—C11—H11A119.0
C4—C5—H5A124.7C11—C12—C13118.2 (4)
C5—C6—S1115.3 (13)C11—C12—H12A120.9
C5—C6—H6A122.4C13—C12—H12A120.9
S1—C6—H6A122.4C12—C13—C14121.4 (5)
C6—S1—C393.3 (8)C12—C13—H13A119.3
C6A—S1A—C396.2 (18)C14—C13—H13A119.3
C5A—C6A—S1A118 (3)C13—C14—C9120.1 (4)
C5A—C6A—H6AA120.8C13—C14—H14A120.0
S1A—C6A—H6AA120.8C9—C14—H14A120.0
C2—N1—N2—C1−0.7 (3)C2—C3—S1—C6−175.1 (6)
C2—N1—N2—C7179.4 (2)S1A—C3—S1—C6−0.3 (8)
N1—N2—C1—O11.3 (3)C4A—C3—S1A—C6A3 (3)
C7—N2—C1—O1−178.9 (3)C2—C3—S1A—C6A−179.0 (19)
N1—N2—C1—S2−177.7 (2)S1—C3—S1A—C6A6 (2)
C7—N2—C1—S22.1 (5)C3—S1A—C6A—C5A−6 (4)
C2—O1—C1—N2−1.3 (3)S1A—C6A—C5A—C4A7 (5)
C2—O1—C1—S2177.8 (2)C4—C3—C4A—C5A4 (3)
N2—N1—C2—O1−0.2 (3)C2—C3—C4A—C5A−177.8 (14)
N2—N1—C2—C3178.2 (3)S1A—C3—C4A—C5A1 (3)
C1—O1—C2—N11.0 (3)S1—C3—C4A—C5A−52 (19)
C1—O1—C2—C3−177.6 (3)C6A—C5A—C4A—C3−4 (4)
N1—C2—C3—C4176.5 (11)C9—N3—C7—N2−106.3 (3)
O1—C2—C3—C4−5.2 (11)C8—N3—C7—N285.5 (4)
N1—C2—C3—C4A−2.0 (17)C1—N2—C7—N3−107.6 (3)
O1—C2—C3—C4A176.4 (17)N1—N2—C7—N372.2 (3)
N1—C2—C3—S1A179.8 (5)C7—N3—C9—C10−154.3 (3)
O1—C2—C3—S1A−1.9 (6)C8—N3—C9—C1013.5 (4)
N1—C2—C3—S1−6.1 (5)C7—N3—C9—C1426.8 (4)
O1—C2—C3—S1172.2 (3)C8—N3—C9—C14−165.3 (3)
C4A—C3—C4—C5−8 (2)N3—C9—C10—C11−178.1 (3)
C2—C3—C4—C5173.5 (10)C14—C9—C10—C110.8 (5)
S1A—C3—C4—C555 (29)C9—C10—C11—C12−0.3 (6)
S1—C3—C4—C5−4.1 (17)C10—C11—C12—C130.1 (6)
C3—C4—C5—C64 (2)C11—C12—C13—C14−0.3 (6)
C4—C5—C6—S1−3 (2)C12—C13—C14—C90.8 (5)
C5—C6—S1—C30.2 (15)C10—C9—C14—C13−1.0 (5)
C4—C3—S1—C62.6 (12)N3—C9—C14—C13177.9 (3)
C4A—C3—S1—C6129 (20)
  7 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Synthesis, antimicrobial and cytotoxic activities of 1,3,4-oxadiazoles, 1,3,4-thiadiazoles and 1,2,4-triazoles.

Authors:  V Padmavathi; G Sudhakar Reddy; A Padmaja; P Kondaiah
Journal:  Eur J Med Chem       Date:  2008-11-01       Impact factor: 6.514

3.  Synthesis, antimicrobial, and anti-HIV-1 activity of certain 5-(1-adamantyl)-2-substituted thio-1,3,4-oxadiazoles and 5-(1-adamantyl)-3-substituted aminomethyl-1,3,4-oxadiazoline-2-thiones.

Authors:  Ali A El-Emam; Omar A Al-Deeb; Mohamed Al-Omar; Jochen Lehmann
Journal:  Bioorg Med Chem       Date:  2004-10-01       Impact factor: 3.641

4.  5-(4,4''-Difluoro-5'-hy-droxy-1,1':3',1''-terphenyl-4'-yl)-3-(morpholin-4-ylmeth-yl)-1,3,4-oxadiazole-2(3H)-thione.

Authors:  Hoong-Kun Fun; Suhana Arshad; S Samshuddin; B Narayana; B K Sarojini
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-11-19

5.  2-(Adamantan-1-yl)-5-(4-nitro-phen-yl)-1,3,4-oxadiazole.

Authors:  Ali A El-Emam; Adnan A Kadi; Nasser R El-Brollosy; Seik Weng Ng; Edward R T Tiekink
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-02-24

6.  Synthesis and antimicrobial activity of new 5-(2-thienyl)-1,2,4-triazoles and 5-(2-thienyl)-1,3,4-oxadiazoles and related derivatives.

Authors:  Mohamed A Al-Omar
Journal:  Molecules       Date:  2010-01-22       Impact factor: 4.411

7.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  7 in total
  2 in total

1.  Crystal structure of 3-[(4-benzyl-piperazin-1-yl)meth-yl]-5-(thio-phen-2-yl)-2,3-di-hydro-1,3,4-oxa-diazole-2-thione.

Authors:  Fatmah A M Al-Omary; Ali A El-Emam; Hazem A Ghabbour; C S Chidan Kumar; Ching Kheng Quah; Hoong-Kun Fun
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2015-02-13

2.  3-[(4-Phenyl-piperazin-1-yl)meth-yl]-5-(thio-phen-2-yl)-2,3-di-hydro-1,3,4-oxa-diazole-2-thione.

Authors:  Ali A El-Emam; Mohamed A Al-Omar; Abdul-Rahman M Al-Obaid; Seik Weng Ng; Edward R T Tiekink
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2013-04-10
  2 in total

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