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Acta Crystallographica Section E: Crystallographic Communications logoLink to Acta Crystallographica Section E: Crystallographic Communications
. 2021 Jul 13;77(Pt 8):788–794. doi: 10.1107/S2056989021006666

1-{(E)-[4-(4-Hy­droxy­phen­yl)butan-2-yl­idene]amino}-3-phenyl­thio­urea: crystal structure, Hirshfeld surface analysis and computational study

Ming Yueh Tan a, Huey Chong Kwong b, Karen A Crouse c,d,, Thahira B S A Ravoof c, Edward R T Tiekink b,*
PMCID: PMC8340978  PMID: 34422302

The title thio­urea derivative adopts a U-shaped conformation, which incorporates an intra­molecular amine-N—H⋯N(imine) hydrogen bond. In the mol­ecular packing, supra­molecular chains are formed through hydroxyl-O—H⋯S(thione) and amine-N—H⋯O hydrogen bonding.

Keywords: crystal structure, Schiff base, thio­urea, hydrogen bonding, Hirshfeld surface analysis

Abstract

The title thio­urea derivative, C17H19N3OS, adopts a U-shaped conformation with the dihedral angle between the terminal aromatic rings being 73.64 (5)°. The major twist in the mol­ecule occurs about the ethane bond with the Ci—Ce—Ce—Cb torsion angle being −78.12 (18)°; i = imine, e = ethane and b = benzene. The configuration about the imine bond is E, the N-bound H atoms lie on opposite sides of the mol­ecule and an intra­molecular amine-N—H⋯N(imine) hydrogen bond is evident. In the mol­ecular packing, hydroxyl-O—H⋯S(thione) and amine-N—H⋯O hydrogen bonding feature within a linear, supra­molecular chain. The chains are connected into a layer in the ab plane by a combination of methyl­ene-C—H⋯S(thione), methyl­ene-C—H⋯O(hydrox­yl), methyl-C—H⋯π(phen­yl) and phenyl-C—H⋯π(hy­droxy­benzene) inter­actions. The layers stack without directional inter­actions between them. The analysis of the calculated Hirshfeld surface highlights the presence of weak methyl-C—H⋯O(hydrox­yl) and H⋯H inter­actions in the inter-layer region. Computational chemistry indicates that dispersion energy is the major contributor to the overall stabilization of the mol­ecular packing.

Chemical context  

Raspberry ketone, also known as 4-(4-hy­droxy­phen­yl)-2-butanone (C10H12O2), is a natural phenolic compound found in raspberries, kiwi fruit, brewed coffee, yew and orchid flowers (Lee, 2016). This ketone is the primary compound responsible for the fruity aroma and has long been used commercially as a fragrance and flavouring agent for cosmetics, perfume, food and beverages. The pharmaceutical attributes exhibited by this ketone include anti-androgenic activity in human breast cancer cells, de-pigmentation, anti-inflammatory activity and cardioprotective action in rats (Dziduch et al., 2020; Yuan et al., 2020). In this work, raspberry ketone was condensed with 4-phenyl-3-thio­semicarbazide to form the title thio­urea derivative, C17H19N3OS, hereafter designated as (I). Such compounds are of much inter­est due to their attractive and widespread pharmacological activities including anti-bacterial, anti-fungal, anti-tubercular, anti-convulsant, anti-tumour, anti-oxidant, anti-malarial and anti-helmintic properties (Dincel & Guzeldemirci, 2020). In a continuation of on-going studies on related derivatives and complexes (Tan, Ho et al. 2020; Tan, Kwong et al. 2020a ,b ), herein the synthesis, structure determination, Hirshfeld surface analysis and computational chemistry of (I) are reported. graphic file with name e-77-00788-scheme1.jpg

Structural commentary  

The mol­ecular structure of (I), Fig. 1, comprises an almost planar central chromophore with the r.m.s. deviation for the C1, N1–N3 and S1 atoms being 0.0039 Å; the maximum deviation from the least-squares plane is 0.0054 (12) Å for the C1 atom. The pendant C2 and C8 atoms lie 0.065 (3) and 0.072 (2) Å out of and to the same side of the central plane. While the N1-bound phenyl ring is approximately co-planar with the central residue, forming a dihedral angle of 7.94 (8)°, the terminal 4-hy­droxy­benzene ring is not, forming a dihedral angle of 67.00 (4)°; the dihedral angle between the rings is 73.64 (5)°. This conformation arises as there is a twist about the ethane bond, i.e. the C8—C10—C11—C12 torsion angle is −78.12 (18)°. Globally, both aromatic residues lie to the same side of the mol­ecule so that it has a U-shaped conformation.

Figure 1.

Figure 1

The mol­ecular structure of (I) showing the atom-labelling scheme and displacement ellipsoids at the 70% probability level.

The C1—S1 bond length is 1.6910 (15) Å, the C1—N1 bond [1.340 (2) Å] is marginally shorter than the C1—N2 [1.356 (2) Å] bond, the formally C8—N3 double bond is 1.284 (2) Å and N2—N3 is 1.3857 (18) Å. These values, coupled with the observed planarity in this region of the mol­ecule, is suggestive of some delocalization of π-electron density over this residue. The configuration about the C8=N3 imine bond is E. The N-bound H atoms lie to opposite sides of the mol­ecule, a conformation that allows for the formation of an intra­molecular amine-N—H⋯N(imine) hydrogen bond, Table 1.

Table 1. Hydrogen-bond geometry (Å, °).

Cg1 and Cg2 are the centroids of the (C2–C7) and (C12–C17) rings, respectively.

D—H⋯A D—H H⋯A DA D—H⋯A
N1—H1N⋯N3 0.88 (2) 2.10 (2) 2.6214 (19) 117 (1)
O1—H1O⋯S1i 0.84 (1) 2.34 (2) 3.1489 (13) 162 (2)
N2—H2N⋯O1ii 0.87 (2) 2.31 (2) 3.1219 (19) 155 (2)
C11—H11A⋯S1iii 0.99 2.84 3.7936 (17) 163
C11—H11B⋯O1iv 0.99 2.58 3.438 (2) 145
C9—H9ACg1iii 0.98 2.90 3.6862 (19) 138
C4—H4⋯Cg2v 0.95 2.90 3.6939 (19) 142
C6—H6⋯Cg2vi 0.98 2.84 3.601 (2) 138

Symmetry codes: (i) x-1, y+1, z; (ii) x+1, y-1, z; (iii) -x+2, -y+1, -z+1; (iv) x+1, y, z; (v) -x+1, -y+1, -z+1; (vi) -x+1, -y+2, -z+1.

Supra­molecular features  

In the crystal, hydrogen bonding leads to the formation of a linear, supra­molecular chain parallel to [ Inline graphic 73]. These chains arise because the hydroxyl-O—H atom forms a hydrogen bond to the thione-S1 atom and the hydroxyl-O1 atom simultaneously accepts a N—H⋯O hydrogen bond from the amine-N2—H atom, Fig. 2(a). They are connected into a supra­molecular layer parallel to the c axis via methyl­ene-C—H⋯S(thione) and methyl­ene-C—H⋯O(hydrox­yl) inter­actions as well as methyl-C—H⋯π(phen­yl) and phenyl-C—H⋯π(hy­droxy­benzene) contacts, Table 1 and Fig. 2(b). The layers thus formed are two mol­ecules thick and stack along the c-axis direction without directional inter­actions between them, Fig. 2(c). Finally, as indicated in Fig. 2(b) and (c), the supra­molecular connectivity brings two sulfur atoms into close proximity, with an S1⋯S1i separation of 3.3534 (6) Å, cf. the sum of the van der Waals radii of 3.60 Å (Spek, 2020); symmetry operation (i): 2 − x, −y, 1 − z.

Figure 2.

Figure 2

Mol­ecular packing in (I): (a) the supra­molecular chain sustained by hy­droxy-O—H⋯S(thione) and amine-N—H⋯O(hydrox­yl) hydrogen bonding shown as orange and blue dashed lines, respectively (non-participating H atoms omitted), (b) the supra­molecular layer whereby the chains of (a) are connected by methyl­ene-C—H⋯O(hy­droxy) (pink dashed lines), methyl­ene-C—H⋯O(thione) (green) and C—H⋯π (purple) inter­actions (non-participating H atoms omitted) and (c) a view of the unit-cell contents shown in projection down the a axis highlighting the stacking of layers.

Analysis of the Hirshfeld surfaces  

The Hirshfeld surface analysis comprising the calculation of the d norm surface (McKinnon et al., 2004), electrostatic potential (Spackman et al., 2008), using the wave function at the HF/STO-3G level of theory, and two-dimensional fingerprint plots (Spackman & McKinnon, 2002) were generated to further elucidate the inter­actions in the crystal of (I), in particular within the inter-layer region. This study was carried out using Crystal Explorer 17 (Turner et al., 2017) following literature procedures (Tan et al., 2019).

The bright-red spots on the Hirshfeld surface mapped over d norm in Fig. 3(a), i.e. near the amine-H2N and thione-S1 atoms, correspond to the amine-N2—H2N⋯O1(hydrox­yl), hydroxyl-O1—H1O⋯S1(thione) hydrogen bonds and the thione-S1⋯S1(thione) short contact; these and other short contacts calculated using Crystal Explorer 17 are collated in Table 2. These hydrogen bonds are also reflected in the Hirshfeld surface mapped over the electrostatic potential shown in Fig. 3(b), where the positive electrostatic potential (blue) and negative electrostatic potential (red) regions are observed around the amine-H2N and thione-S1 atoms, respectively. The faint red spots appearing near the thione-S1, hydroxyl-O1 and methyl­ene-H11A and H11B atoms (Fig. 4) correspond to methyl­ene-C—H⋯S(thione) and methyl­ene-C—H⋯O1(hydrox­yl) inter­actions, with separations ∼0.2 Å shorter than the sum of their respective van der Waals radii, Table 2. The methyl-C9—H9A⋯π(C2–C7; Cg1) and phenyl-C6—H6⋯π(C12–C17; Cg2) inter­actions are shown as faint red spots on the d norm surface in Fig. 5(a) and as two distinctive orange ‘potholes’ on the shape-index-mapped over Hirshfeld surface in Fig. 5(b). It is noted that the phenyl-C4—H4⋯π(C12–C17, Cg2) inter­action, Table 1, was not manifested on the d norm-mapped Hirshfeld surface. However, this inter­action clearly shows up as an orange ‘pothole’ on the shape-index-mapped Hirshfeld surface in Fig. 6.

Figure 3.

Figure 3

Views of the Hirshfeld surface for (I) mapped over (a) d norm in the range −0.490 to +1.188 arbitrary units and (b) the calculated electrostatic potential in the range of −0.072 to +0.133 atomic units.

Table 2. A summary of short inter­atomic contacts (Å) for (I) a .

Contact Distance Symmetry operation
O1—H1O⋯S1 b 2.20 x − 1, y + 1, z
N2—H2N⋯O1 b 2.19 x + 1, y − 1, z
S1⋯S1 3.35 x + 2, −y + 1, −z + 1
C11—H11A⋯S1 2.75 x + 2, −y + 1, −z + 1
C11—H11B⋯O1 2.50 x + 1, y, z
C9—H9ACg(C2–C7) 2.90 x + 2, −y + 1, −z + 1
C6—H6⋯Cg(C12–C17) 2.84 x + 1, −y + 2, −z + 1
C4—H4⋯Cg(C12–C17) 2.90 x + 1, −y + 1, −z + 1
H1O⋯H2N 2.05 x − 1, y + 1, z

Notes: (a) The inter­atomic distances are calculated in Crystal Explorer 17 (Turner et al., 2017) with the X—H bond lengths adjusted to their neutron values. (b) This contact corresponds to a conventional hydrogen bond.

Figure 4.

Figure 4

Two views of the Hirshfeld surface mapped for (I) over (a) d norm in the range −0.490 to +1.188 arbitrary units.

Figure 5.

Figure 5

Views of the Hirshfeld surface mapped for (I) over (a) d norm in the range −0.490 to +1.188 arbitrary units and (b) the shape-index property, each highlighting the methyl-C9—H9A⋯π(C2–C7; Cg1) and phenyl-C6—H6⋯π(C12–C17; Cg2) inter­actions.

Figure 6.

Figure 6

A view of the Hirshfeld surface mapped for (I) over the shape-index property highlighting phenyl-C4—H4⋯π(C12–C17; Cg2) inter­action.

The overall two-dimensional fingerprint plot computed for (I) is shown in Fig. 7(a) and those delineated into H⋯H, H⋯C/C⋯H, H⋯S/S⋯H and H⋯O/O⋯H contacts are illustrated in Fig. 7(b)–(e), respectively. The percentage contributions to the Hirshfeld surface of (I) from the different inter­atomic contacts are summarized in Table 3. The H⋯H contacts are the most prominent of all contacts and contribute 49.6% to the entire surface. The H⋯H contact manifested as a duckbill peak tipped at d e = d i ∼2.1 Å, Fig. 7(b), corresponds to the intra-layer H1O⋯H2N contact listed in Table 2. The H⋯C/C⋯H contacts contribute 22.6% to the Hirshfeld surface, Fig. 7(c), reflecting the significant C—H⋯π inter­actions evinced in the packing analysis, Table 1. Consistent with the O—H⋯S and N—H⋯O hydrogen bonds occurring in the crystal, H⋯S/S⋯H and H⋯O/O⋯H contacts contribute 10.5 and 6.4%, respectively, to the overall Hirshfeld surface. These two contacts appear as two sharp spikes in the fingerprint plots at d e = d i ≃ 2.2 Å in Fig. 7(d) and (e), respectively. The contributions from the other six inter­atomic contacts summarized in Table 3 have a reduced influence on the calculated Hirshfeld surface of (I), as each contributes less than 3.0%.

Figure 7.

Figure 7

(a) A comparison of the full two-dimensional fingerprint plot for (I) and those delineated into (b) H⋯H, (c) H⋯C/C⋯H, (d) H⋯S/S⋯H and (e) H⋯O/O⋯H contacts.

Table 3. The percentage contributions from inter­atomic contacts to the Hirshfeld surface for (I).

Contact Percentage contribution
H⋯H 49.6
H⋯C/C⋯H 22.6
H⋯S/S⋯H 10.5
H⋯O/O⋯H 6.4
C⋯C 2.9
N⋯C/C⋯N 2.9
H⋯N/N⋯H 2.8
N⋯N 1.0
S⋯S 0.8
S⋯C/C⋯S 0.5

Computational chemistry  

The energy frameworks were calculated for (I) by summing the four energy components – the electrostatic (E ele), polarization (E pol), dispersion (E dis) and exchange-repulsion (E rep) energy components (Turner et al., 2017). The individual energy components as well as the total energy for the identified inter­molecular inter­actions are summarized in Table 4. As the intra-layer region is mainly consolidated by C—H⋯π and C—H⋯S/O inter­actions, the E dis component makes the major contribution to the inter­action energies. The most significant stabilization energies are found in the intra-layer region, as outlined in Supra­molecular Features. The S1⋯S1 short contact is dominated by the E ele (−8.9 kJ mol−1) and E rep (12.2 kJ mol−1) terms and having a total energy of 11.7 kJ mol−1 is non-attractive.

Table 4. A summary of inter­action energies (kJ mol−1) calculated for (I).

Contact R (Å) E ele E pol E dis E rep E tot
Intra-layer region            
C11—H11A⋯S1iii +            
C9—H9ACg(C2—C7)v 5.43 −38.9 −11.6 −84.9 76.0 −76.7
C4—H4⋯Cg(C12—C17)vi 5.30 −26.8 −7.3 −95.7 66.8 −75.8
O1—H1O⋯S1i +            
N2—H2N⋯O1ii 10.02 −64.6 −14.9 −21.3 84.4 −45.7
C6—H6⋯Cg(C12—C17)vii 7.12 −5.8 −2.1 −44.2 30.4 −27.4
C11—H11B⋯O1iv 8.06 −2.2 −1.0 −9.9 6.5 −7.7
C6⋯H1O viii 11.11 −0.3 −0.4 −3.5 0.0 −3.6
S1⋯S1ix 11.56 8.9 −1.8 −4.4 12.2 11.7
Inter-layer region            
C9—H9B⋯O1 x +            
H10A⋯H16 x 8.90 −11.2 −2.7 −28.8 13.3 −30.7
H10A⋯H10B xi +            
H10B⋯H17xi 10.63 0.8 −1.8 −24.9 17.1 −11.6
H4⋯H17xii +            
H5⋯H16xii 12.23 −4.0 −0.5 −11.1 6.6 −10.2
H9C⋯H9C xiii 10.35 −2.8 −1.4 −9.5 7.3 −7.8
H5⋯H9B xiv 13.13 1.5 −0.3 −3.9 1.2 −1.4

Symmetry codes: (i) x − 1, y + 1, z; (ii) x + 1, y − 1, z; (iii) −x + 2, −y + 1, −z + 1; (iv) x + 1, y, z; (v) −x + 2, −y + 1, −z + 1; (vi) −x + 1, −y + 1, −z + 1; (vii) −x + 1, −y + 2, −z + 1; (viii) −x, −y + 2, −z + 1; (ix) −x + 2, −y, −z + 1; (x) −x + 1, −y + 2, −z; (xi) −x + 2, −y + 2, −z; (xii) x, y − 1, z + 1; (xiii) −x + 2, −y, −z + 1; (xiv) x − 1, y, z + 1.

The stabilization energies in the inter-layer region are dominated by the E dis component. The greatest stabilization energy in the inter-layer region arises from methyl-C9—H9B⋯O1(hydrox­yl) [2.87 Å; −x + 1, −y + 2, −z] and methyl­ene-H10⋯H16(hy­droxy­benzene) inter­actions [2.59 Å; −x + 1, −y + 2, −z], which sum to −30.7 kJ mol−1. Generally, the long-range H⋯H contacts are the major inter­actions stabilizing the mol­ecules within the inter-layer region.

Views of the energy framework diagrams down the a axis direction are shown in Fig. 8 and serve to emphasize the contribution of dispersion forces to the overall mol­ecular packing. The total E ele of all pairwise inter­actions sum to −145.4 kJ mol−1, while the E dis totals −342.1 kJ mol−1.

Figure 8.

Figure 8

Perspective views of the energy frameworks calculated for (I) showing (a) electrostatic potential force, (b) dispersion force and (c) total energy, each plotted down the a axis. The radii of the cylinders are proportional to the relative magnitudes of the corresponding energies and were adjusted to the same scale factor of 55 with a cut-off value of 5 kJ mol−1.

Database survey  

In the crystallographic literature, there are two precedents for mol­ecules related to (I) in which the imine bond is connected to an aromatic residue via an ethane link. Each of these is a N-methyl species, i.e. MeN(H)C(=S)N(H)N=C(Me)CH2CH2Ar, one with Ar = phenyl (Tan, Kwong et al., 2020a ) and the other with Ar = 4-meth­oxy­benzene (Tan et al., 2012). In the former, the mol­ecule has a distinctive U-shaped conformation with a twist about the CH2—CH2 bond [the Ci—Cm—Cm—Cp (i = imine, m = methyl­ene, p = phen­yl) torsion angle = −62.76 (16)°], a conformation stabilized, at least in part, by an intra­molecular amine-N—H⋯π(phen­yl) inter­action. By contrast, in the species with Ar = 4-meth­oxy­benzene, the mol­ecule is close to planar as indicated by the Ci—Cm—Cm—Cp torsion angles of 177.51 (12) and −175.80 (12)°, respectively, for the two independent molecules comprising the asymmetric unit. Thus, to a first approximation, the conformation observed in (I) matches that seen in the species with Ar = phenyl, even though no intra­molecular N—H⋯π(hy­droxy­benzene) inter­action was noted in (I).

Synthesis and crystallization  

4-Phenyl-3-thio­semicarbazide (10 mmol) dissolved in hot absolute ethanol (50 ml) was combined with 4-(4-hy­droxy­phen­yl)-2-butanone (10 mmol), dissolved in hot absolute ethanol (50 ml) with a few drops of concentrated hydro­chloric acid added as catalyst. The mixture was heated (348 K) and stirred for about 30 min. The mixture was allowed to cool to room temperature while stirring. The white precipitate was filtered, washed with cold ethanol and dried in vacuo. Single crystals were grown at room temperature in mixed solvents of dimethyformamide and aceto­nitrile (1:2 v/v) by slow evaporation. 1H NMR (500 MHz, CDCl3, referenced to TMS): δ 9.14 (s, 1H), 8.59 (s, 1H), 7.59 (d, 2H), 7.37 (t, 2H), 7.22 (t, 1H), 7.03 (d, 2H), 6.76 (d, 2H), 5.46 (s, 1H), 2.83 (t, 2H), 2.61 (t, 2H), 1.90 (s, 3H). 13C NMR (500 MHz, CDCl3, referenced to solvent, 77.16 ppm): δ 176.22, 154.16, 152.02, 137.93, 132.72, 129.39, 128.84, 126.16, 124.39, 115.57, 40.38, 31.58, 16.19.

Refinement  

Crystal data, data collection and structure refinement details are summarized in Table 5. The carbon-bound H-atoms were placed in calculated positions (C—H = 0.95–0.99 Å) and were included in the refinement in the riding-model approximation, with U iso(H) set to 1.2–1.5U eq(C). The O-bound and N-bound H atoms were located in a difference-Fourier map but were refined with O—H = 0.84±0.01 and N—H = 0.88±0.01 Å distance restraints, respectively, and with U iso(H) set to 1.5U eq(O) and 1.2U eq(N).

Table 5. Experimental details.

Crystal data
Chemical formula C17H19N3OS
M r 313.41
Crystal system, space group Triclinic, P\overline{1}
Temperature (K) 100
a, b, c (Å) 8.0605 (6), 9.5635 (6), 11.4397 (6)
α, β, γ (°) 70.578 (5), 82.671 (5), 68.723 (6)
V3) 774.95 (9)
Z 2
Radiation type Cu Kα
μ (mm−1) 1.89
Crystal size (mm) 0.35 × 0.21 × 0.04
 
Data collection
Diffractometer Oxford Diffraction Gemini
Absorption correction Multi-scan (CrysAlis PRO; Agilent, 2012)
T min, T max 0.52, 0.93
No. of measured, independent and observed [I > 2σ(I)] reflections 15291, 2982, 2712
R int 0.032
(sin θ/λ)max−1) 0.616
 
Refinement
R[F 2 > 2σ(F 2)], wR(F 2), S 0.039, 0.109, 1.03
No. of reflections 2982
No. of parameters 209
No. of restraints 3
H-atom treatment H atoms treated by a mixture of independent and constrained refinement
Δρmax, Δρmin (e Å−3) 0.36, −0.21

Computer programs: CrysAlis PRO (Agilent, 2012), SHELXT (Sheldrick, 2015a ), SHELXL2018/3 (Sheldrick, 2015b ), ORTEP-3 for Windows (Farrugia, 2012), DIAMOND (Brandenburg, 2006) and publCIF (Westrip, 2010).

Supplementary Material

Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S2056989021006666/hb7978sup1.cif

e-77-00788-sup1.cif (457.7KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989021006666/hb7978Isup2.hkl

e-77-00788-Isup2.hkl (238.3KB, hkl)

Supporting information file. DOI: 10.1107/S2056989021006666/hb7978Isup3.cml

CCDC reference: 2092413

Additional supporting information: crystallographic information; 3D view; checkCIF report

Acknowledgments

The intensity data were collected by M. I. M. Tahir, Universiti Putra Malaysia.

supplementary crystallographic information

Crystal data

C17H19N3OS Z = 2
Mr = 313.41 F(000) = 332
Triclinic, P1 Dx = 1.343 Mg m3
a = 8.0605 (6) Å Cu Kα radiation, λ = 1.5418 Å
b = 9.5635 (6) Å Cell parameters from 7107 reflections
c = 11.4397 (6) Å θ = 4–72°
α = 70.578 (5)° µ = 1.89 mm1
β = 82.671 (5)° T = 100 K
γ = 68.723 (6)° Plate, colourless
V = 774.95 (9) Å3 0.35 × 0.21 × 0.04 mm

Data collection

Oxford Diffraction Gemini diffractometer 2712 reflections with I > 2σ(I)
Graphite monochromator Rint = 0.032
ω scans θmax = 71.9°, θmin = 4.1°
Absorption correction: multi-scan (CrysAlisPro; Agilent, 2012) h = −9→9
Tmin = 0.52, Tmax = 0.93 k = −11→11
15291 measured reflections l = −13→13
2982 independent reflections

Refinement

Refinement on F2 Primary atom site location: structure-invariant direct methods
Least-squares matrix: full Secondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.039 Hydrogen site location: mixed
wR(F2) = 0.109 H atoms treated by a mixture of independent and constrained refinement
S = 1.03 w = 1/[σ2(Fo2) + (0.0658P)2 + 0.2814P] where P = (Fo2 + 2Fc2)/3
2982 reflections (Δ/σ)max < 0.001
209 parameters Δρmax = 0.36 e Å3
3 restraints Δρmin = −0.21 e Å3

Special details

Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes.

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

x y z Uiso*/Ueq
S1 0.93080 (5) 0.19624 (4) 0.46989 (4) 0.02796 (15)
O1 0.12066 (15) 1.17646 (14) 0.21473 (11) 0.0292 (3)
H1O 0.082 (3) 1.159 (3) 0.2882 (11) 0.044*
N1 0.77812 (17) 0.49550 (15) 0.48469 (12) 0.0233 (3)
H1N 0.774 (2) 0.5919 (13) 0.4427 (16) 0.028*
N2 0.95702 (17) 0.46117 (15) 0.31940 (12) 0.0237 (3)
H2N 1.024 (2) 0.3997 (19) 0.2772 (15) 0.028*
N3 0.92493 (17) 0.62221 (15) 0.27822 (12) 0.0235 (3)
C1 0.8821 (2) 0.39389 (18) 0.42601 (14) 0.0223 (3)
C2 0.6701 (2) 0.47628 (18) 0.59294 (14) 0.0219 (3)
C3 0.6397 (2) 0.33626 (18) 0.66028 (15) 0.0247 (3)
H3 0.695700 0.243795 0.636170 0.030*
C4 0.5271 (2) 0.33353 (19) 0.76263 (15) 0.0254 (3)
H4 0.506601 0.238203 0.808407 0.030*
C5 0.4437 (2) 0.4669 (2) 0.79964 (15) 0.0268 (4)
H5 0.366970 0.463257 0.870039 0.032*
C6 0.4742 (2) 0.6063 (2) 0.73207 (16) 0.0300 (4)
H6 0.417842 0.698703 0.756202 0.036*
C7 0.5864 (2) 0.61034 (19) 0.62989 (15) 0.0271 (4)
H7 0.606583 0.705860 0.584298 0.033*
C8 0.9943 (2) 0.67483 (18) 0.17277 (15) 0.0241 (3)
C9 1.1028 (2) 0.5771 (2) 0.09267 (16) 0.0323 (4)
H9A 1.224584 0.522396 0.124235 0.048*
H9B 1.104985 0.645704 0.007433 0.048*
H9C 1.049551 0.499250 0.094012 0.048*
C10 0.9738 (2) 0.84652 (19) 0.12493 (15) 0.0265 (4)
H10A 0.909132 0.893089 0.045447 0.032*
H10B 1.094242 0.854018 0.106361 0.032*
C11 0.8784 (2) 0.94844 (19) 0.20771 (15) 0.0269 (4)
H11A 0.922435 0.889481 0.293362 0.032*
H11B 0.911704 1.044499 0.179824 0.032*
C12 0.6776 (2) 0.99862 (17) 0.21054 (15) 0.0234 (3)
C13 0.5843 (2) 0.97100 (18) 0.32206 (15) 0.0254 (3)
H13 0.648932 0.912561 0.396999 0.030*
C14 0.3991 (2) 1.02660 (18) 0.32684 (15) 0.0260 (3)
H14 0.338550 1.005371 0.404055 0.031*
C15 0.3032 (2) 1.11362 (18) 0.21756 (15) 0.0247 (3)
C16 0.3935 (2) 1.14113 (18) 0.10509 (15) 0.0257 (3)
H16 0.328803 1.198894 0.030121 0.031*
C17 0.5781 (2) 1.08424 (18) 0.10229 (15) 0.0253 (3)
H17 0.638311 1.103991 0.024812 0.030*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
S1 0.0328 (2) 0.0182 (2) 0.0289 (2) −0.00720 (17) 0.00688 (16) −0.00644 (16)
O1 0.0263 (6) 0.0318 (6) 0.0311 (6) −0.0113 (5) 0.0057 (5) −0.0126 (5)
N1 0.0245 (7) 0.0172 (6) 0.0265 (7) −0.0084 (5) 0.0031 (5) −0.0044 (5)
N2 0.0239 (7) 0.0194 (6) 0.0260 (7) −0.0073 (5) 0.0050 (5) −0.0067 (5)
N3 0.0212 (6) 0.0201 (6) 0.0280 (7) −0.0085 (5) 0.0002 (5) −0.0044 (5)
C1 0.0192 (7) 0.0218 (8) 0.0252 (8) −0.0069 (6) −0.0010 (6) −0.0064 (6)
C2 0.0190 (7) 0.0232 (8) 0.0231 (7) −0.0072 (6) −0.0002 (6) −0.0067 (6)
C3 0.0243 (8) 0.0222 (8) 0.0287 (8) −0.0088 (6) 0.0013 (6) −0.0086 (6)
C4 0.0253 (8) 0.0247 (8) 0.0260 (8) −0.0116 (7) 0.0008 (6) −0.0046 (6)
C5 0.0256 (8) 0.0302 (8) 0.0245 (8) −0.0105 (7) 0.0045 (6) −0.0090 (7)
C6 0.0338 (9) 0.0255 (8) 0.0311 (9) −0.0089 (7) 0.0041 (7) −0.0124 (7)
C7 0.0326 (9) 0.0213 (8) 0.0273 (8) −0.0106 (7) 0.0028 (7) −0.0069 (6)
C8 0.0177 (7) 0.0250 (8) 0.0266 (8) −0.0068 (6) −0.0010 (6) −0.0045 (6)
C9 0.0331 (9) 0.0321 (9) 0.0275 (9) −0.0096 (7) 0.0034 (7) −0.0073 (7)
C10 0.0222 (8) 0.0257 (8) 0.0284 (8) −0.0110 (6) 0.0025 (6) −0.0021 (7)
C11 0.0291 (9) 0.0238 (8) 0.0291 (8) −0.0140 (7) −0.0023 (7) −0.0037 (6)
C12 0.0287 (8) 0.0174 (7) 0.0270 (8) −0.0116 (6) 0.0008 (6) −0.0069 (6)
C13 0.0342 (9) 0.0193 (7) 0.0238 (8) −0.0115 (6) −0.0017 (6) −0.0051 (6)
C14 0.0352 (9) 0.0218 (8) 0.0250 (8) −0.0143 (7) 0.0076 (7) −0.0100 (6)
C15 0.0270 (8) 0.0205 (7) 0.0307 (8) −0.0114 (6) 0.0045 (6) −0.0113 (6)
C16 0.0294 (8) 0.0239 (8) 0.0243 (8) −0.0096 (7) −0.0002 (6) −0.0076 (6)
C17 0.0295 (8) 0.0240 (8) 0.0240 (8) −0.0120 (6) 0.0038 (6) −0.0078 (6)

Geometric parameters (Å, º)

S1—C1 1.6910 (15) C8—C9 1.500 (2)
O1—C15 1.373 (2) C8—C10 1.501 (2)
O1—H1O 0.842 (10) C9—H9A 0.9800
N1—C1 1.340 (2) C9—H9B 0.9800
N1—C2 1.419 (2) C9—H9C 0.9800
N1—H1N 0.877 (9) C10—C11 1.524 (2)
N2—C1 1.356 (2) C10—H10A 0.9900
N2—N3 1.3857 (18) C10—H10B 0.9900
N2—H2N 0.874 (9) C11—C12 1.512 (2)
N3—C8 1.284 (2) C11—H11A 0.9900
C2—C7 1.392 (2) C11—H11B 0.9900
C2—C3 1.397 (2) C12—C13 1.392 (2)
C3—C4 1.386 (2) C12—C17 1.396 (2)
C3—H3 0.9500 C13—C14 1.392 (2)
C4—C5 1.387 (2) C13—H13 0.9500
C4—H4 0.9500 C14—C15 1.393 (2)
C5—C6 1.392 (2) C14—H14 0.9500
C5—H5 0.9500 C15—C16 1.389 (2)
C6—C7 1.382 (2) C16—C17 1.387 (2)
C6—H6 0.9500 C16—H16 0.9500
C7—H7 0.9500 C17—H17 0.9500
C15—O1—H1O 108.4 (15) H9A—C9—H9B 109.5
C1—N1—C2 132.42 (13) C8—C9—H9C 109.5
C1—N1—H1N 110.3 (13) H9A—C9—H9C 109.5
C2—N1—H1N 117.2 (13) H9B—C9—H9C 109.5
C1—N2—N3 120.90 (13) C8—C10—C11 117.78 (14)
C1—N2—H2N 117.6 (13) C8—C10—H10A 107.9
N3—N2—H2N 121.4 (13) C11—C10—H10A 107.9
C8—N3—N2 115.76 (14) C8—C10—H10B 107.9
N1—C1—N2 114.40 (13) C11—C10—H10B 107.9
N1—C1—S1 128.00 (12) H10A—C10—H10B 107.2
N2—C1—S1 117.60 (12) C12—C11—C10 115.73 (13)
C7—C2—C3 119.28 (15) C12—C11—H11A 108.3
C7—C2—N1 115.94 (13) C10—C11—H11A 108.3
C3—C2—N1 124.75 (15) C12—C11—H11B 108.3
C4—C3—C2 119.36 (15) C10—C11—H11B 108.3
C4—C3—H3 120.3 H11A—C11—H11B 107.4
C2—C3—H3 120.3 C13—C12—C17 117.43 (15)
C3—C4—C5 121.43 (14) C13—C12—C11 121.19 (14)
C3—C4—H4 119.3 C17—C12—C11 121.22 (14)
C5—C4—H4 119.3 C14—C13—C12 121.84 (15)
C4—C5—C6 119.00 (15) C14—C13—H13 119.1
C4—C5—H5 120.5 C12—C13—H13 119.1
C6—C5—H5 120.5 C13—C14—C15 119.51 (15)
C7—C6—C5 120.06 (16) C13—C14—H14 120.2
C7—C6—H6 120.0 C15—C14—H14 120.2
C5—C6—H6 120.0 O1—C15—C16 117.28 (14)
C6—C7—C2 120.87 (15) O1—C15—C14 123.09 (15)
C6—C7—H7 119.6 C16—C15—C14 119.62 (15)
C2—C7—H7 119.6 C17—C16—C15 119.96 (15)
N3—C8—C9 125.38 (14) C17—C16—H16 120.0
N3—C8—C10 118.97 (15) C15—C16—H16 120.0
C9—C8—C10 115.60 (14) C16—C17—C12 121.62 (15)
C8—C9—H9A 109.5 C16—C17—H17 119.2
C8—C9—H9B 109.5 C12—C17—H17 119.2
C1—N2—N3—C8 −176.20 (13) N2—N3—C8—C10 −176.77 (12)
C2—N1—C1—N2 176.34 (14) N3—C8—C10—C11 2.8 (2)
C2—N1—C1—S1 −4.5 (2) C9—C8—C10—C11 −174.92 (13)
N3—N2—C1—N1 0.0 (2) C8—C10—C11—C12 −78.12 (18)
N3—N2—C1—S1 −179.27 (11) C10—C11—C12—C13 126.58 (16)
C1—N1—C2—C7 176.90 (15) C10—C11—C12—C17 −58.04 (19)
C1—N1—C2—C3 −5.1 (3) C17—C12—C13—C14 −0.3 (2)
C7—C2—C3—C4 −0.1 (2) C11—C12—C13—C14 175.22 (14)
N1—C2—C3—C4 −178.09 (14) C12—C13—C14—C15 −0.6 (2)
C2—C3—C4—C5 0.1 (2) C13—C14—C15—O1 −178.06 (14)
C3—C4—C5—C6 0.1 (2) C13—C14—C15—C16 1.3 (2)
C4—C5—C6—C7 −0.1 (2) O1—C15—C16—C17 178.31 (13)
C5—C6—C7—C2 0.0 (3) C14—C15—C16—C17 −1.0 (2)
C3—C2—C7—C6 0.1 (2) C15—C16—C17—C12 0.1 (2)
N1—C2—C7—C6 178.22 (14) C13—C12—C17—C16 0.5 (2)
N2—N3—C8—C9 0.7 (2) C11—C12—C17—C16 −175.00 (14)

Hydrogen-bond geometry (Å, º)

Cg1 and Cg2 are the centroids of the (C2–C7) and (C12–C17) rings, respectively.

D—H···A D—H H···A D···A D—H···A
N1—H1N···N3 0.88 (2) 2.10 (2) 2.6214 (19) 117 (1)
O1—H1O···S1i 0.84 (1) 2.34 (2) 3.1489 (13) 162 (2)
N2—H2N···O1ii 0.87 (2) 2.31 (2) 3.1219 (19) 155 (2)
C11—H11A···S1iii 0.99 2.84 3.7936 (17) 163
C11—H11B···O1iv 0.99 2.58 3.438 (2) 145
C9—H9A···Cg1iii 0.98 2.90 3.6862 (19) 138
C4—H4···Cg2v 0.95 2.90 3.6939 (19) 142
C6—H6···Cg2vi 0.98 2.84 3.601 (2) 138

Symmetry codes: (i) x−1, y+1, z; (ii) x+1, y−1, z; (iii) −x+2, −y+1, −z+1; (iv) x+1, y, z; (v) −x+1, −y+1, −z+1; (vi) −x+1, −y+2, −z+1.

Funding Statement

This work was funded by Sunway University grant GRTIN-IRG-01-2021.

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S2056989021006666/hb7978sup1.cif

e-77-00788-sup1.cif (457.7KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989021006666/hb7978Isup2.hkl

e-77-00788-Isup2.hkl (238.3KB, hkl)

Supporting information file. DOI: 10.1107/S2056989021006666/hb7978Isup3.cml

CCDC reference: 2092413

Additional supporting information: crystallographic information; 3D view; checkCIF report


Articles from Acta Crystallographica Section E: Crystallographic Communications are provided here courtesy of International Union of Crystallography

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