organic compounds
E,1′E)-{[(1R,4R)-cyclohexane-1,4-diyl]bis(azanylylidene)}bis(methanylylidene))bis(1H-pyrrole-2,1-diyl)]diacetate
of diethyl 2,2′-[((1aDepartment of Chemistry, College of Education for Pure Science, University of Basrah, Iraq, bSchool of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, England, and cDepartment of Chemistry, College of Education (Ibn Al-Haitham) for Pure Science, University of Baghdad, Iraq
*Correspondence e-mail: mohamadaljeboori@yahoo.com
The whole molecule of the title compound, C24H32N4O4, is generated by inversion symmetry. The cyclohexane ring adopts a chair conformation and the conformation about the C=N bonds is E. The pyrrole rings have an anti confirmation with respect to the cyclohexane moiety and the ethyl acetate groups have extended conformations. In the crystal, molecules are linked by pairs of C—H⋯O hydrogen bonds forming chains, enclosing R22(10) ring motifs with inversion symmetry, propagating parallel to the (101) plane.
Keywords: crystal structure; Schiff base; bispyrrole; C—H⋯O hydrogen bonding.
CCDC reference: 1048163
1. Related literature
For general background on the applications of et al. (2015); Trofimov et al. (2015). For the synthesis of dipyrrole ligands, see: Meghdadi et al. (2010); Munro et al. (2004). For the synthesis of pyrrole ester precursors, see: Koriatopoulou et al. (2008); Singh & Pal (2010). For the preparation of see: Yang et al. (2004); Ourari et al. (2013).
and the use of pyrrole compounds, see: Köse2. Experimental
2.1. Crystal data
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2.3. Refinement
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Data collection: CrysAlis PRO (Agilent, 2013); cell CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS2014 (Sheldrick, 2008); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL2014 and PLATON.
Supporting information
CCDC reference: 1048163
10.1107/S2056989015002674/su5080sup1.cif
contains datablocks Gobal, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S2056989015002674/su5080Isup2.hkl
The title compound was prepared in a two step procedure:
Synthesis of ethyl (2-formyl-1H-pyrrole-1-yl)-acetate (L): prepared by reported procedures (Koriatopoulou et al., 2008; Singh & Pal, 2010) as follows: To a mixture of 1H-pyrrole-2-carbaldehyde (1.00 g, 10.51 mmol), K2CO3 (2.90g, 21.02 mmol) and (2.64 g, 10.51 mmol) of 18-crown-6 in dry 1,4-dioxane (20ml), was added drop wise a solution of ethyl bromoacetate (2.00 g, 12 mmol) in dry 1,4-dioxane (20 ml), over a period of 30 min. The reaction mixture was allowed to reflux under a nitrogen atmosphere for 6 h, and then the solvent was removed under reduced pressure. Water (50ml) was added to the residue, and the mixture was extracted with ethyl acetate (3 × 15ml). The combined organic layers were washed with brine (15 ml), and then dried over Na2SO4. The solvent was removed under reduced pressure, and the oily residue was purified by flash δH: (500 MHz, CDCl3): 1.20 (3H, t, C12—H), 4.15 (2H, q, C11—H), 4.97 (2H, s, C8—H), 6.21 (1H, t, C3—H), 6.84 (1H, d, C4—H), 6.90 (1H, d, C2—H) and 9.45 (1H, s, C6—H); δC (125.75 MHz, CDCl3), 14.13 C12, 50.25 C8, 61.63 C11, 110.20 C3, 124.61 C4, 131.71 C5 and 132.10 C2. C=O for the carboxylate moiety at 168.37 (C12) and at 179.74 for C6. The positive ES at m/z = 182.4 (M+H)+ (62%) for C9H11NO3, requires = 181.1. The other peaks detected at m/z =153.4 (100%), 109.3 (6%), 95 (9%) and 67 (4%) correspond to [M—CH2CH3]+, [M-(CH2CH3+CO2)]+, [M-(CH2CH3+CO2+CH2)]+ and [M-(CH2CH3+CO2+CH2+CO)]+, respectively. IR (ATR cm-1): 1650 ν(C=O) aldehyde moiety. 1710 ν(C=O) ester group.
with an mixture (33% ethyl acetate / hexane), giving compound (L) as a yellow oil product (yield: 0.75 g, 75%). NMR data (p.p.m),Synthesis of the title Schiff-base: performed using conventional procedures (Yang et al., 2004; Ourari et al., 2013). To a mixture of L (1.81 g, 10 mmol) in ethanol (20 ml) with 3 drops of glacial acetic acid, a solution of 1,4-diaminocyclohexan (0.57 g, 5 mmol) in ethanol (20ml) was added drop wise over a period of 20 min. The reaction mixture was allowed to reflux for 3h, and then cooled to room temperature. A white precipitate was collected by filtration and recrystallised from ethanol (yield: 1.09g, 60%). Crystals were obtained by slow evaporation of a solution in methanol/acetone. NMR data (p.p.m), δH (500 MHz, CDCl3): 1.19 (6H, t,C15, 15–H), 1.47 (C10, 10- ,4H, q), δH = 1.67 (C9, 9-, 4H, q), 2.94 (2H, p, C8, 8–H), 4.10 (4H, q,C14, 14–H), 5.03 (C11, 11–H, 4H, s), 6.11 (2H, t, C3, 3–H), 6.38 (2H, d, C4, 4–H), 6.61 (2H, d, C2, 2–H) and 8.07 (2H, s, C6, 6–H); δC (125.75 MHz, CDCl3), 14.28 (C15, 15-). 32.61 (C10, 10- and C19, 9- ), 51.13 (C11, 11-), 61.07 (C14, 14- ), 68.8 (C8, 8-), 108.53 (C2, 2-), 116.58 (C5, 5-), 127.69 (C3, 3-), 129.93 (C4, 4-), 150.04 (C6, 6-), C=O 169.37 (C12, 12-). The positive ES at m/z = 441.52 (M+H)+ (100%) for C24H32N4O4, requires = 440.24. The other peaks detected at m/z = 412.42 (5%), 383 (3%), 295.19 (9%) and 267.1 (4%) correspond to [M—CH2CH3]+, [M-(2CH2CH3)]+, [M-(2CH2CH3+2CO2)]+ and [M(2CH2CH3+2CO2+2CH2)]+, respectively. IR (ATR, cm-1): 1580 (C=N), 1630 (C=O).
Data collection: CrysAlis PRO (Agilent, 2013); cell
CrysAlis PRO (Agilent, 2013); data reduction: CrysAlis PRO (Agilent, 2013); program(s) used to solve structure: SHELXS2014 (Sheldrick, 2008); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL2014 (Sheldrick, 2015) and PLATON (Spek, 2009).C24H32N4O4 | Z = 1 |
Mr = 440.54 | F(000) = 236 |
Triclinic, P1 | Dx = 1.245 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 8.5531 (6) Å | Cell parameters from 1515 reflections |
b = 8.8379 (7) Å | θ = 3.3–26.7° |
c = 9.6492 (9) Å | µ = 0.09 mm−1 |
α = 115.166 (9)° | T = 150 K |
β = 92.105 (7)° | Block, colourless |
γ = 113.288 (8)° | 0.4 × 0.3 × 0.3 mm |
V = 587.68 (10) Å3 |
Agilent SuperNova (single source at offset, Atlas) diffractometer | 2734 independent reflections |
Radiation source: SuperNova (Mo) X-ray Source | 1827 reflections with I > 2σ(I) |
Mirror monochromator | Rint = 0.028 |
Detector resolution: 10.37 pixels mm-1 | θmax = 29.4°, θmin = 2.9° |
ω scans | h = −11→11 |
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2013) | k = −10→12 |
Tmin = 0.933, Tmax = 1.000 | l = −13→8 |
4657 measured reflections |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
R[F2 > 2σ(F2)] = 0.055 | H-atom parameters constrained |
wR(F2) = 0.124 | w = 1/[σ2(Fo2) + (0.0363P)2 + 0.1039P] where P = (Fo2 + 2Fc2)/3 |
S = 1.07 | (Δ/σ)max < 0.001 |
2734 reflections | Δρmax = 0.18 e Å−3 |
146 parameters | Δρmin = −0.25 e Å−3 |
0 restraints |
C24H32N4O4 | γ = 113.288 (8)° |
Mr = 440.54 | V = 587.68 (10) Å3 |
Triclinic, P1 | Z = 1 |
a = 8.5531 (6) Å | Mo Kα radiation |
b = 8.8379 (7) Å | µ = 0.09 mm−1 |
c = 9.6492 (9) Å | T = 150 K |
α = 115.166 (9)° | 0.4 × 0.3 × 0.3 mm |
β = 92.105 (7)° |
Agilent SuperNova (single source at offset, Atlas) diffractometer | 2734 independent reflections |
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2013) | 1827 reflections with I > 2σ(I) |
Tmin = 0.933, Tmax = 1.000 | Rint = 0.028 |
4657 measured reflections |
R[F2 > 2σ(F2)] = 0.055 | 0 restraints |
wR(F2) = 0.124 | H-atom parameters constrained |
S = 1.07 | Δρmax = 0.18 e Å−3 |
2734 reflections | Δρmin = −0.25 e Å−3 |
146 parameters |
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. |
x | y | z | Uiso*/Ueq | ||
O13 | 0.46898 (16) | 0.46998 (17) | 0.19574 (15) | 0.0317 (3) | |
O16 | 0.63475 (17) | 0.71083 (17) | 0.43494 (15) | 0.0338 (4) | |
N1 | 0.67517 (19) | 0.9650 (2) | 0.32094 (18) | 0.0274 (4) | |
N7 | 0.87176 (19) | 0.7539 (2) | 0.17968 (18) | 0.0313 (4) | |
C12 | 0.5599 (2) | 0.6517 (3) | 0.3013 (2) | 0.0270 (4) | |
C6 | 0.9477 (2) | 0.9265 (3) | 0.2821 (2) | 0.0297 (5) | |
H6 | 1.0695 | 0.9854 | 0.3163 | 0.036* | |
C5 | 0.8559 (2) | 1.0361 (2) | 0.3483 (2) | 0.0275 (4) | |
C10 | 0.9066 (2) | 0.4733 (2) | 0.1181 (2) | 0.0311 (5) | |
H10A | 0.7851 | 0.3992 | 0.0575 | 0.037* | |
H10B | 0.9087 | 0.4935 | 0.2252 | 0.037* | |
C11 | 0.5474 (2) | 0.7689 (2) | 0.2290 (2) | 0.0279 (4) | |
H11A | 0.5653 | 0.7192 | 0.1233 | 0.033* | |
H11B | 0.4302 | 0.7597 | 0.2201 | 0.033* | |
C2 | 0.6355 (3) | 1.1083 (3) | 0.4039 (2) | 0.0317 (5) | |
H2 | 0.5229 | 1.0970 | 0.4061 | 0.038* | |
C9 | 1.0097 (2) | 0.3654 (3) | 0.0461 (2) | 0.0307 (5) | |
H9A | 0.9545 | 0.2438 | 0.0420 | 0.037* | |
H9B | 1.1280 | 0.4334 | 0.1127 | 0.037* | |
C8 | 0.9819 (2) | 0.6620 (2) | 0.1201 (2) | 0.0304 (5) | |
H8 | 1.1007 | 0.7412 | 0.1897 | 0.036* | |
C4 | 0.9269 (3) | 1.2260 (3) | 0.4484 (2) | 0.0340 (5) | |
H4 | 1.0459 | 1.3098 | 0.4864 | 0.041* | |
C3 | 0.7880 (3) | 1.2712 (3) | 0.4833 (2) | 0.0377 (5) | |
H3 | 0.7980 | 1.3898 | 0.5483 | 0.045* | |
C14 | 0.4577 (3) | 0.3383 (3) | 0.2513 (2) | 0.0400 (5) | |
H14A | 0.4025 | 0.3576 | 0.3392 | 0.048* | |
H14B | 0.5743 | 0.3562 | 0.2869 | 0.048* | |
C15 | 0.3512 (3) | 0.1451 (3) | 0.1175 (3) | 0.0544 (7) | |
H15A | 0.4111 | 0.1242 | 0.0342 | 0.082* | |
H15B | 0.2388 | 0.1314 | 0.0787 | 0.082* | |
H15C | 0.3349 | 0.0551 | 0.1534 | 0.082* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O13 | 0.0352 (8) | 0.0259 (7) | 0.0293 (8) | 0.0091 (6) | 0.0017 (6) | 0.0141 (6) |
O16 | 0.0378 (8) | 0.0349 (7) | 0.0245 (8) | 0.0133 (6) | 0.0036 (6) | 0.0140 (6) |
N1 | 0.0295 (8) | 0.0254 (8) | 0.0269 (9) | 0.0133 (7) | 0.0060 (6) | 0.0114 (7) |
N7 | 0.0275 (8) | 0.0302 (8) | 0.0281 (9) | 0.0150 (7) | 0.0050 (7) | 0.0054 (7) |
C12 | 0.0238 (10) | 0.0303 (10) | 0.0253 (10) | 0.0116 (8) | 0.0079 (8) | 0.0124 (8) |
C6 | 0.0255 (10) | 0.0337 (10) | 0.0262 (10) | 0.0119 (9) | 0.0061 (8) | 0.0126 (9) |
C5 | 0.0291 (10) | 0.0282 (10) | 0.0231 (10) | 0.0120 (8) | 0.0062 (8) | 0.0115 (8) |
C10 | 0.0250 (10) | 0.0340 (10) | 0.0249 (10) | 0.0115 (9) | 0.0054 (8) | 0.0083 (8) |
C11 | 0.0250 (10) | 0.0305 (10) | 0.0265 (10) | 0.0120 (8) | 0.0052 (8) | 0.0129 (8) |
C2 | 0.0412 (11) | 0.0355 (10) | 0.0299 (11) | 0.0252 (10) | 0.0127 (9) | 0.0178 (9) |
C9 | 0.0259 (10) | 0.0280 (10) | 0.0300 (11) | 0.0104 (8) | 0.0039 (8) | 0.0089 (8) |
C8 | 0.0204 (9) | 0.0302 (10) | 0.0293 (11) | 0.0116 (8) | 0.0034 (7) | 0.0050 (8) |
C4 | 0.0361 (11) | 0.0269 (10) | 0.0308 (11) | 0.0105 (9) | 0.0062 (9) | 0.0106 (9) |
C3 | 0.0519 (13) | 0.0269 (10) | 0.0341 (12) | 0.0207 (10) | 0.0109 (10) | 0.0118 (9) |
C14 | 0.0480 (13) | 0.0336 (11) | 0.0396 (13) | 0.0130 (10) | 0.0065 (10) | 0.0240 (10) |
C15 | 0.0690 (16) | 0.0316 (11) | 0.0498 (15) | 0.0101 (12) | −0.0021 (12) | 0.0217 (11) |
O13—C12 | 1.336 (2) | C6—C5 | 1.441 (2) |
O13—C14 | 1.448 (2) | C5—C4 | 1.375 (2) |
O16—C12 | 1.203 (2) | C10—C9 | 1.522 (2) |
N1—C5 | 1.384 (2) | C10—C8 | 1.522 (3) |
N1—C11 | 1.452 (2) | C2—C3 | 1.365 (3) |
N1—C2 | 1.363 (2) | C9—C8i | 1.526 (3) |
N7—C6 | 1.270 (2) | C8—C9i | 1.526 (3) |
N7—C8 | 1.458 (2) | C4—C3 | 1.405 (3) |
C12—C11 | 1.506 (3) | C14—C15 | 1.490 (3) |
C12—O13—C14 | 116.15 (15) | C4—C5—C6 | 127.83 (17) |
C5—N1—C11 | 126.32 (15) | C8—C10—C9 | 111.74 (14) |
C2—N1—C5 | 108.70 (15) | N1—C11—C12 | 112.58 (15) |
C2—N1—C11 | 124.84 (15) | N1—C2—C3 | 108.91 (17) |
C6—N7—C8 | 117.71 (15) | C10—C9—C8i | 111.47 (17) |
O13—C12—C11 | 109.47 (16) | N7—C8—C10 | 109.64 (14) |
O16—C12—O13 | 124.75 (19) | N7—C8—C9i | 109.49 (17) |
O16—C12—C11 | 125.74 (17) | C10—C8—C9i | 110.20 (15) |
N7—C6—C5 | 123.74 (17) | C5—C4—C3 | 107.99 (18) |
N1—C5—C6 | 124.91 (15) | C2—C3—C4 | 107.14 (17) |
C4—C5—N1 | 107.27 (16) | O13—C14—C15 | 107.88 (18) |
O13—C12—C11—N1 | −166.07 (14) | C11—N1—C5—C6 | 3.5 (3) |
O16—C12—C11—N1 | 16.3 (3) | C11—N1—C5—C4 | −176.36 (17) |
N1—C5—C4—C3 | 0.4 (2) | C11—N1—C2—C3 | 176.43 (17) |
N1—C2—C3—C4 | −0.3 (2) | C2—N1—C5—C6 | 179.33 (19) |
N7—C6—C5—N1 | 6.4 (3) | C2—N1—C5—C4 | −0.6 (2) |
N7—C6—C5—C4 | −173.7 (2) | C2—N1—C11—C12 | −110.7 (2) |
C12—O13—C14—C15 | 179.68 (16) | C9—C10—C8—N7 | 176.06 (15) |
C6—N7—C8—C10 | 134.27 (18) | C9—C10—C8—C9i | 55.5 (2) |
C6—N7—C8—C9i | −104.71 (19) | C8—N7—C6—C5 | 178.46 (18) |
C6—C5—C4—C3 | −179.5 (2) | C8—C10—C9—C8i | −56.2 (2) |
C5—N1—C11—C12 | 64.5 (2) | C14—O13—C12—O16 | 2.0 (3) |
C5—N1—C2—C3 | 0.6 (2) | C14—O13—C12—C11 | −175.70 (15) |
C5—C4—C3—C2 | 0.0 (2) |
Symmetry code: (i) −x+2, −y+1, −z. |
D—H···A | D—H | H···A | D···A | D—H···A |
C14—H14A···O16ii | 0.97 | 2.50 | 3.317 (3) | 142 |
Symmetry code: (ii) −x+1, −y+1, −z+1. |
D—H···A | D—H | H···A | D···A | D—H···A |
C14—H14A···O16i | 0.97 | 2.50 | 3.317 (3) | 142 |
Symmetry code: (i) −x+1, −y+1, −z+1. |
Acknowledgements
The authors are grateful to the Iraqi Ministry for Higher Education for providing six months funding for JA's PhD scholarship.
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The whole molecule of the title compound, Fig.1, is generated by inversion symmetry. The cyclohexane ring adopts a chair conformation and the conformation about the C═N bonds is E. The pyrrole rings crystallize in the anti-confirmation with respect to the cyclohexane moiety and the ethyl acetate moieties have extended conformations.
In the crystal, molecules are linked by pairs of C—H···O hydrogen bonds forming chains, enclosing R22(10) ring motifs with inversion symmetry, propagating parallel to plane (101); see Table 1 and Fig. 2.
Infrared spectrum indicated typical absorbance bands of the functional –C═ N and carbonyl –C═O at 1580 and 1630 cm-1, respectively. The positive ES mass spectrum of the bis Schiff-base showed a parent ion peak at m/z = 441.52 (M+H)+, corresponding to C26H32N4O4, for which the required value is 440.24. The N7═C6 bond distance [1.270 (2) Å] is shorter than the N2—C8 bond distance [1.458 (2) Å], indicating a double bond order. However, the N1—C5 bond distance [1.384 (2) Å] indicates resonance has occurred in the pyrrole system between the lone pair electron of the nitrogen atom and the pyrrole ring.