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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2014 Oct 24;70(Pt 11):400–402. doi: 10.1107/S1600536814023265

Crystal structure of 3-({[(morpholin-4-yl)carbono­thio­yl]sulfan­yl}acet­yl)phenyl benzoate

Sachin P Ambekar a, K Mahesh Kumar a, Arun Kumar M Shirahatti a, O Kotresh a, G N Anil Kumar b,*
PMCID: PMC4257286  PMID: 25484757

In the crystal structure of the title compound, the morpholine ring adopts the expected chair conformation. The central phenyl ring makes dihedral angles of 67.97 (4) and 7.74 (3)°, respectively, with the benzoate phenyl ring and the lattice mean plane. In the crystal, mol­ecules are linked by C—H⋯O hydrogen bonds.

Keywords: crystal structure, phenyl benzoates, hydrogen bonding

Abstract

In the title compound, C20H19NO4S2, the morpholine ring adopts the expected chair conformation. The central phenyl ring makes dihedral angles of 67.97 (4) and 7.74 (3)°, respectively, with the benzoate phenyl ring and the morpholine mean plane. In the crystal, mol­ecules are linked by C—H⋯O hydrogen bonds, forming zigzag chains along the b-axis direction. C—H⋯π inter­actions link centrosymmetrically related mol­ecules, reinforcing the three-dimensional structure.

Chemical context  

The title compound is a di­thio­carbamate ester derivative of 3-(2-bromacet­yl) phenyl benzoate, a key starting material used in the synthesis of phenyl­ephrine, (R)-3-[−1-hy­droxy-2-(methyl­amino)­eth­yl] phenol, which is a selective α1-adrenergic receptor agonist used primarily as a decongestant and as an agent to dilate the pupil and to increase blood pressure. Our current research work is aimed at the synthesis of a series of 3-(2-bromacet­yl) phenyl benzoate di­thio­carbamate ester derivatives. Di­thio­carbamate acid esters exhibit a range of biological effects, including anti-bacterial, anti-fungal and anti-oxidant activity (Hirschelman et al., 2002) and inhibition of cardiac hypertrophy (Naoto et al. 2008). Recently, it was found that 5-oxohexyl di­thio­carbamic acid methyl esters are potent phase II enzyme inducers, which could be used as cancer chemo-preventive agents (Scozzafava et al., 2000).graphic file with name e-70-00400-scheme1.jpg

Structural commentary  

In the mol­ecular structure of the title compound, the morpholine ring adopts the expected chair conformation. The phenyl ring makes dihedral angles of 67.97 (4) and 7.74 (3)° respectively with phenyl ring and the morpholine mean plane. This is also reflected in the deviation of the torsion angles C5—S1—C6—C7 = 175.32 (2) and C12—O3—C14—C15 = −178.91 (3)°. Weak intra­molecular C—H⋯S hydrogen bonds exist within the morpholyl di­thio­carbamate moiety (Table 1).

Table 1. Hydrogen-bond geometry (, ).

Cg is the centroid of the C15C20 ring.

DHA DH HA D A DHA
C2H2BS1 0.97 2.41 2.938(2) 114
C3H3AS2 0.97 2.56 3.052(5) 111
C13H13O4i 0.93 2.43 3.224(3) 143
C11H11Cg ii 0.93 2.88 3.629(2) 138

Symmetry codes: (i) Inline graphic; (ii) Inline graphic.

Supra­molecular features  

In the crystal, mol­ecules are linked by weak C—H⋯O hydrogen bonds, forming zigzag chains along the b axis. C—H⋯π inter­actions link centrosymmetrically related mol­ecules, reinforcing the three-dimensional structure (Fig. 2)

Figure 2.

Figure 2

Packing diagram of the title compound, with C—H⋯O and C—H⋯π inter­actions indicated by dashed lines.

Database survey  

A search of the Cambridge Structural Database (Version 5.35, updates February 2014; Groom & Allen, 2014) for 2-(4-meth­oxy­phen­yl)-2-oxoethyl di­thio­carbamate gave one hit, namely GEGGUV01 (Jian et al., 2006). A search for 2-oxoethyl di­thio­formate gave two related structures, viz. 2-oxo-2-(2-oxo-2H-chromen-3-yl)ethyl pyrrolidine-1-carbodi­thio­ate (Kumar et al., 2013) and (6-meth­oxy-2-oxo-2H-chromen-4-yl)methyl morpholine-4-carbodi­thio­ate (Devarajegowda et al., 2013). Inter­estingly, dimer formation via C—H⋯O hydrogen bonds is a feature of the packing in these structures.

Synthesis and Crystallization  

To a solution of NaOH (1 mmol) in 3 ml water was added to a mixture of morpholine (1 mmol) in ethanol (25 ml). After stirring at room temperature for about 20 min, carbon di­sulfide (1.2 mmol) was added dropwise and the resulting mixture was further stirred at room temperature for 90 min. Then 3-(2-bromacet­yl) phenyl benzoate (1 mmol) was added and stirring was continued. After completion of the reaction (monitored by TLC), the solvent was removed under vacuum and the residue was extracted with di­chloro­methane (2 × 25 ml) and dried over anhydrous MgSO4. The solvent was evaporated and the compound recrystallized from an ethanol–chloro­form mixture (3:1) to give the title compound as colourless crystals in 81% yield.

Off-white solid, IR (KBr) νmax/cm−1: 2857, 3073 (C—H aliphatic and aromatic), 1732 (C=O), 1421, 1680 (C=C), 1264 (C—O), 1228 (C=S), 1061 (C—N). 1H NMR (300 MHz, CDCl3): δ 3.77–3.80 (t, 4H), 4.23–4.43 (t, 4H), 4.91(s, 2H), 7.26–7.47 (m, 1H), 7.48–7.51 (m, 2H), 7.53–7.60 (m, 1H), 7.63–768 (m, 1H), 7.90–7.91 (t, 1H), 7.99–8.02 (d, 1H), 8.20–8.22 (d, 2H); 13C NMR (75 MHz, CDCl3): δ 44.6 (C6), 49.5 (C2, C3), 65.6 (C1, C4), 121.83 (C13), 126.0 (C9), 127.1 (C11), 128.6 (C10), 129.8 (C17, C19), 130.2 (C15, C16, C20), 137.6 (C18), 151.2 (C8), 154.93 (C12), 182.82 (C14), 192.15 (C7), 195.75 (C5); MS m/z: 402.10 [M + H]+. Analysis calculated (%) for C20H19NO4S2: C 59.83, H 4.77, N 3.49, S 15.97%; found: C 59.72, H 4.85, N 3.61, S 15.94.

Refinement  

Crystal data, data collection and structure refinement details are summarized in Table 2. The C-bound H atoms were positioned geometrically and allowed to ride on their parent atoms, with C—H = 0.93–0.97Å and U iso(H) = 1.2U eq(C).

Table 2. Experimental details.

Crystal data
Chemical formula C20H19NO4S2
M r 401.48
Crystal system, space group Monoclinic, P21/c
Temperature (K) 296
a, b, c () 19.5521(7), 5.3649(2), 18.5142(6)
() 101.816(2)
V (3) 1900.90(12)
Z 4
Radiation type Mo K
(mm1) 0.31
Crystal size (mm) 0.35 0.31 0.25
 
Data collection
Diffractometer Bruker SMART CCD area detector
Absorption correction Multi-scan (SADABS; Sheldrick, 1996)
T min, T max 0.887, 0.934
No. of measured, independent and observed [I > 2(I)] reflections 12830, 3539, 2613
R int 0.024
(sin /)max (1) 0.606
 
Refinement
R[F 2 > 2(F 2)], wR(F 2), S 0.042, 0.122, 1.06
No. of reflections 3539
No. of parameters 244
H-atom treatment H-atom parameters constrained
max, min (e 3) 0.31, 0.22

Computer programs: SMART and SAINT (Bruker, 1998), SIR92 (Altomare et al., 1993), SHELXL97 (Sheldrick, 2008), ORTEP-3 for Windows (Farrugia, 2012), CAMERON (Watkin et al., 1993), PARST (Nardelli, 1995) and PLATON (Spek, 2009).

Supplementary Material

Crystal structure: contains datablock(s) I. DOI: 10.1107/S1600536814023265/hg5411sup1.cif

e-70-00400-sup1.cif (24KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536814023265/hg5411Isup2.hkl

e-70-00400-Isup2.hkl (170KB, hkl)

Supporting information file. DOI: 10.1107/S1600536814023265/hg5411Isup3.cml

CCDC reference: 1030398

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

Figure 1.

Figure 1

The mol­ecular structure of the title compound, showing 50% displacement ellipsoids.

Acknowledgments

The authors thank the University’s Sophisticated Instrumentation Centre (USIC), Karnatak University, Dharwad, for the CCD X-ray facilities, X-ray data collection, GCMS, IR, CHNS and NMR data. SPA is grateful to Karnatak Science College, Dharwad, for providing laboratory facilities.

supplementary crystallographic information

Crystal data

C20H19NO4S2 Z = 4
Mr = 401.48 F(000) = 840
Monoclinic, P21/c Dx = 1.403 Mg m3
Hall symbol: -P 2ybc Mo Kα radiation, λ = 0.71073 Å
a = 19.5521 (7) Å θ = 1.5°
b = 5.3649 (2) Å µ = 0.31 mm1
c = 18.5142 (6) Å T = 296 K
β = 101.816 (2)° Block, colourless
V = 1900.90 (12) Å3 0.35 × 0.31 × 0.25 mm

Data collection

Bruker SMART CCD area-detector diffractometer 3539 independent reflections
Radiation source: fine-focus sealed tube 2613 reflections with I > 2σ(I)
Graphite monochromator Rint = 0.024
φ and ω scans θmax = 25.5°, θmin = 1.1°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) h = −23→21
Tmin = 0.887, Tmax = 0.934 k = −6→6
12830 measured reflections l = −22→22

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)] = 0.042 Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.122 H-atom parameters constrained
S = 1.06 w = 1/[σ2(Fo2) + (0.0581P)2 + 0.4768P] where P = (Fo2 + 2Fc2)/3
3539 reflections (Δ/σ)max = 0.001
244 parameters Δρmax = 0.31 e Å3
0 restraints Δρmin = −0.22 e Å3

Special details

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.

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

x y z Uiso*/Ueq
S1 0.13247 (3) 1.07076 (13) 0.54256 (3) 0.0473 (2)
S2 0.23625 (3) 1.18442 (16) 0.68201 (4) 0.0652 (3)
O1 0.00887 (10) 1.6886 (4) 0.68361 (10) 0.0733 (6)
O2 0.14049 (8) 0.7580 (4) 0.42396 (9) 0.0697 (6)
O3 0.42171 (7) 0.3229 (3) 0.54362 (8) 0.0483 (4)
O4 0.39360 (9) −0.0264 (4) 0.59595 (10) 0.0741 (6)
N1 0.10421 (9) 1.3302 (4) 0.65235 (10) 0.0531 (6)
C1 0.00244 (13) 1.5923 (6) 0.61218 (14) 0.0639 (8)
H1A 0.0271 1.7004 0.5841 0.077*
H1B −0.0465 1.5919 0.588 0.077*
C2 0.03069 (12) 1.3339 (5) 0.61164 (14) 0.0614 (8)
H2A 0.003 1.2205 0.6347 0.074*
H2B 0.0282 1.2798 0.5612 0.074*
C3 0.11178 (14) 1.4422 (6) 0.72615 (13) 0.0636 (8)
H3A 0.161 1.4564 0.7487 0.076*
H3B 0.0899 1.3352 0.7571 0.076*
C4 0.07911 (14) 1.6908 (6) 0.72117 (15) 0.0684 (8)
H4A 0.0816 1.7552 0.7706 0.082*
H4B 0.1053 1.8027 0.6959 0.082*
C5 0.15653 (11) 1.2086 (5) 0.63120 (11) 0.0413 (5)
C6 0.20694 (11) 0.8751 (5) 0.54092 (12) 0.0456 (6)
H6A 0.2483 0.9771 0.5431 0.055*
H6B 0.215 0.7648 0.5833 0.055*
C7 0.19298 (11) 0.7242 (5) 0.47079 (12) 0.0452 (6)
C8 0.24493 (10) 0.5309 (4) 0.46121 (11) 0.0395 (5)
C9 0.22848 (12) 0.3671 (5) 0.40227 (11) 0.0479 (6)
H9 0.1857 0.3808 0.3696 0.058*
C10 0.27482 (12) 0.1849 (5) 0.39175 (12) 0.0526 (7)
H10 0.263 0.075 0.3523 0.063*
C11 0.33890 (12) 0.1638 (5) 0.43933 (12) 0.0483 (6)
H11 0.3705 0.0409 0.4323 0.058*
C12 0.35499 (10) 0.3272 (5) 0.49695 (11) 0.0419 (6)
C13 0.30942 (10) 0.5091 (4) 0.50962 (11) 0.0414 (5)
H13 0.3214 0.616 0.5498 0.05*
C14 0.43558 (11) 0.1310 (5) 0.59189 (11) 0.0420 (5)
C15 0.50633 (10) 0.1476 (4) 0.63896 (11) 0.0372 (5)
C16 0.52631 (11) −0.0360 (5) 0.69145 (12) 0.0453 (6)
H16 0.4962 −0.1674 0.695 0.054*
C17 0.59067 (12) −0.0250 (5) 0.73859 (12) 0.0504 (6)
H17 0.604 −0.149 0.7738 0.061*
C18 0.63503 (12) 0.1690 (5) 0.73352 (13) 0.0513 (6)
H18 0.6783 0.1772 0.7656 0.062*
C19 0.61594 (12) 0.3512 (5) 0.68132 (14) 0.0541 (7)
H19 0.6464 0.4817 0.678 0.065*
C20 0.55158 (11) 0.3418 (5) 0.63371 (12) 0.0469 (6)
H20 0.5388 0.4654 0.5983 0.056*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
S1 0.0349 (3) 0.0585 (5) 0.0456 (3) 0.0066 (3) 0.0015 (2) −0.0034 (3)
S2 0.0367 (3) 0.0894 (6) 0.0619 (4) 0.0102 (3) −0.0081 (3) −0.0198 (4)
O1 0.0666 (12) 0.0761 (15) 0.0765 (12) 0.0228 (11) 0.0129 (10) −0.0131 (11)
O2 0.0453 (10) 0.0814 (15) 0.0702 (11) 0.0143 (10) −0.0169 (8) −0.0206 (10)
O3 0.0345 (8) 0.0437 (11) 0.0624 (9) −0.0025 (7) −0.0006 (7) 0.0083 (8)
O4 0.0600 (11) 0.0719 (15) 0.0788 (12) −0.0315 (11) −0.0128 (9) 0.0217 (10)
N1 0.0410 (11) 0.0666 (16) 0.0477 (11) 0.0127 (10) −0.0001 (8) −0.0080 (10)
C1 0.0484 (15) 0.071 (2) 0.0681 (17) 0.0092 (14) 0.0027 (12) 0.0023 (15)
C2 0.0393 (13) 0.076 (2) 0.0649 (15) 0.0129 (13) 0.0018 (11) −0.0099 (14)
C3 0.0595 (16) 0.080 (2) 0.0498 (14) 0.0117 (15) 0.0066 (11) −0.0060 (14)
C4 0.0686 (19) 0.069 (2) 0.0673 (17) 0.0034 (16) 0.0121 (14) −0.0146 (15)
C5 0.0359 (11) 0.0424 (15) 0.0444 (11) 0.0010 (10) 0.0051 (9) 0.0039 (10)
C6 0.0334 (11) 0.0534 (17) 0.0481 (12) 0.0039 (11) 0.0041 (9) −0.0035 (11)
C7 0.0341 (12) 0.0490 (17) 0.0492 (12) −0.0040 (11) 0.0004 (9) −0.0029 (11)
C8 0.0315 (11) 0.0433 (15) 0.0427 (11) −0.0051 (10) 0.0049 (9) −0.0010 (10)
C9 0.0429 (13) 0.0561 (18) 0.0417 (12) −0.0031 (12) 0.0014 (10) −0.0037 (11)
C10 0.0560 (15) 0.0570 (19) 0.0434 (12) 0.0016 (13) 0.0064 (11) −0.0101 (11)
C11 0.0477 (13) 0.0488 (17) 0.0499 (13) 0.0060 (11) 0.0134 (10) −0.0011 (11)
C12 0.0310 (11) 0.0450 (16) 0.0485 (12) −0.0035 (10) 0.0055 (9) 0.0031 (10)
C13 0.0357 (11) 0.0413 (15) 0.0447 (12) −0.0064 (10) 0.0024 (9) −0.0039 (10)
C14 0.0400 (12) 0.0404 (16) 0.0456 (12) −0.0030 (11) 0.0089 (9) −0.0027 (10)
C15 0.0344 (11) 0.0326 (14) 0.0449 (11) 0.0006 (10) 0.0092 (9) −0.0050 (10)
C16 0.0441 (13) 0.0379 (15) 0.0546 (13) −0.0026 (11) 0.0121 (10) 0.0023 (11)
C17 0.0482 (14) 0.0488 (18) 0.0527 (13) 0.0085 (12) 0.0066 (11) 0.0091 (11)
C18 0.0379 (13) 0.0547 (18) 0.0571 (14) 0.0041 (12) 0.0004 (10) −0.0041 (12)
C19 0.0384 (13) 0.0465 (18) 0.0740 (16) −0.0093 (11) 0.0039 (11) 0.0008 (13)
C20 0.0410 (13) 0.0383 (16) 0.0592 (14) −0.0014 (11) 0.0054 (10) 0.0063 (11)

Geometric parameters (Å, º)

S1—C5 1.774 (2) C6—H6B 0.97
S1—C6 1.800 (2) C7—C8 1.487 (3)
S2—C5 1.653 (2) C8—C9 1.387 (3)
O1—C1 1.401 (3) C8—C13 1.394 (3)
O1—C4 1.407 (3) C9—C10 1.374 (3)
O2—C7 1.214 (2) C9—H9 0.93
O3—C14 1.354 (3) C10—C11 1.381 (3)
O3—C12 1.410 (2) C10—H10 0.93
O4—C14 1.191 (3) C11—C12 1.367 (3)
N1—C5 1.338 (3) C11—H11 0.93
N1—C3 1.472 (3) C12—C13 1.374 (3)
N1—C2 1.480 (3) C13—H13 0.93
C1—C2 1.493 (4) C14—C15 1.479 (3)
C1—H1A 0.97 C15—C16 1.382 (3)
C1—H1B 0.97 C15—C20 1.383 (3)
C2—H2A 0.97 C16—C17 1.378 (3)
C2—H2B 0.97 C16—H16 0.93
C3—C4 1.474 (4) C17—C18 1.370 (3)
C3—H3A 0.97 C17—H17 0.93
C3—H3B 0.97 C18—C19 1.371 (3)
C4—H4A 0.97 C18—H18 0.93
C4—H4B 0.97 C19—C20 1.382 (3)
C6—C7 1.507 (3) C19—H19 0.93
C6—H6A 0.97 C20—H20 0.93
C5—S1—C6 101.33 (10) C8—C7—C6 118.02 (18)
C1—O1—C4 111.06 (19) C9—C8—C13 119.1 (2)
C14—O3—C12 116.89 (17) C9—C8—C7 118.78 (19)
C5—N1—C3 122.22 (19) C13—C8—C7 122.1 (2)
C5—N1—C2 125.35 (19) C10—C9—C8 120.6 (2)
C3—N1—C2 111.70 (18) C10—C9—H9 119.7
O1—C1—C2 112.8 (2) C8—C9—H9 119.7
O1—C1—H1A 109 C9—C10—C11 120.4 (2)
C2—C1—H1A 109 C9—C10—H10 119.8
O1—C1—H1B 109 C11—C10—H10 119.8
C2—C1—H1B 109 C12—C11—C10 118.6 (2)
H1A—C1—H1B 107.8 C12—C11—H11 120.7
N1—C2—C1 109.3 (2) C10—C11—H11 120.7
N1—C2—H2A 109.8 C11—C12—C13 122.4 (2)
C1—C2—H2A 109.8 C11—C12—O3 120.3 (2)
N1—C2—H2B 109.8 C13—C12—O3 117.27 (19)
C1—C2—H2B 109.8 C12—C13—C8 118.9 (2)
H2A—C2—H2B 108.3 C12—C13—H13 120.6
N1—C3—C4 110.6 (2) C8—C13—H13 120.6
N1—C3—H3A 109.5 O4—C14—O3 122.2 (2)
C4—C3—H3A 109.5 O4—C14—C15 125.4 (2)
N1—C3—H3B 109.5 O3—C14—C15 112.34 (19)
C4—C3—H3B 109.5 C16—C15—C20 119.5 (2)
H3A—C3—H3B 108.1 C16—C15—C14 117.8 (2)
O1—C4—C3 113.0 (2) C20—C15—C14 122.6 (2)
O1—C4—H4A 109 C17—C16—C15 120.3 (2)
C3—C4—H4A 109 C17—C16—H16 119.8
O1—C4—H4B 109 C15—C16—H16 119.8
C3—C4—H4B 109 C18—C17—C16 119.8 (2)
H4A—C4—H4B 107.8 C18—C17—H17 120.1
N1—C5—S2 124.08 (17) C16—C17—H17 120.1
N1—C5—S1 113.60 (15) C17—C18—C19 120.3 (2)
S2—C5—S1 122.32 (13) C17—C18—H18 119.8
C7—C6—S1 108.88 (15) C19—C18—H18 119.8
C7—C6—H6A 109.9 C18—C19—C20 120.3 (2)
S1—C6—H6A 109.9 C18—C19—H19 119.9
C7—C6—H6B 109.9 C20—C19—H19 119.9
S1—C6—H6B 109.9 C19—C20—C15 119.7 (2)
H6A—C6—H6B 108.3 C19—C20—H20 120.2
O2—C7—C8 121.2 (2) C15—C20—H20 120.2
O2—C7—C6 120.8 (2)

Hydrogen-bond geometry (Å, º)

Cg is the centroid of the C15–C20 ring.

D—H···A D—H H···A D···A D—H···A
C2—H2B···S1 0.97 2.41 2.938 (2) 114
C3—H3A···S2 0.97 2.56 3.052 (5) 111
C13—H13···O4i 0.93 2.43 3.224 (3) 143
C11—H11···Cgii 0.93 2.88 3.629 (2) 138

Symmetry codes: (i) x, y+1, z; (ii) −x+1, −y, −z+1.

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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. DOI: 10.1107/S1600536814023265/hg5411sup1.cif

e-70-00400-sup1.cif (24KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536814023265/hg5411Isup2.hkl

e-70-00400-Isup2.hkl (170KB, hkl)

Supporting information file. DOI: 10.1107/S1600536814023265/hg5411Isup3.cml

CCDC reference: 1030398

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


Articles from Acta Crystallographica Section E: Structure Reports Online are provided here courtesy of International Union of Crystallography

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