organic compounds
1,5-Bis(2,5-dimethyl-1H-pyrrol-1-yl)naphthalene
aDepartamento de Qυ'imica, Faculdade de Ciências e Tecnologia, Universidade de Coimbra, P-3004-535 Coimbra, Portugal, bCEMDRX, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade de Coimbra, P-3004-516 Coimbra, Portugal, and cForensic Toxicology Service, National Institute of Legal Medicine, Center Branch, P-3000-213 Coimbra, Portugal
*Correspondence e-mail: manuela@pollux.fis.uc.pt
In the title compound, C22H22N2, the contains one half-molecule. A crystallographic inversion centre is located at the mid-point of the bond common to both rings, in the central naphthalene unit. Quantum-mechanical ab initio calculations on the isolated molecule showed that the minimum energy configuration occurs when the naphthalene ring system and the pyrrolyl groups deviate only slightly from perpendicularity. In the crystal, due to the effects of crystal packing, the molecule deviates by approximately 4° from the a priori expected ideal value of 90° [C—C—N—C torsion angle = 86.11 (15)°].
Related literature
For related compounds, see: Andrade et al. (2008); Ramos Silva et al. (2002); Sobral (2006); Sobral & Rocha Gonsalves (2001a,b). For the ab initio calculation method, see: Schmidt et al. (1993).
Experimental
Crystal data
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Data collection: APEX2 (Bruker, 2003); cell SAINT (Bruker, 2003); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL97.
Supporting information
https://doi.org/10.1107/S1600536809038999/pk2188sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S1600536809038999/pk2188Isup2.hkl
0.680 g (4.3 mmol) of 1,4-phenylenedimethanamine and 1 ml (8.5 mmol) of hexane-2,5-dione were dissolved in 20 ml of tetrahydrofuran, under nitrogen atmosphere. 0.172 g (0.678 mmol) of iodine was added to the stirred solution at 40°C. The procedure was monitored by TLC. After completion of the reaction (6 h), 20 ml of dichlorometane were added to the mixture. The resulting mixture was washed successively with 5% Na2S2O3 solution (2 ml), NaHCO3 solution (2 ml) and brine (2 ml). The organic layer was then dried with anhydrous sodium sulfate and concentrated. The product was purified by flash σ 1.96 (s, 12H, Methyl), σ 5.34 (s, 4H, pyrrole), σ 7.25 (dd, 2H, Aromatic, J = 0.99, J = 7.49 Hz), 7.48 (dd, 2H, Aromatic, J = 0.99 Hz, J = 6.99 Hz), 7.55 (t, 2H, Aromatic, J = 7.0 Hz); 13C - NMR (0.1 M in CDCl3, 125.692 MHz) σ 12.5 (Methyl), σ 105.6 (Pyrrole), σ 129.8 (Pyrrole), σ 126.7 (Aromatic), σ 132.7 (Aromatic). Melting point: Decomposes at 288 °C.
in silica gel 60H FLUKA/dichloromethane and recrystallized in cold dichloromethane, by slow solvent evaporation, to give needle shape crystals 0.473 grams corresponding to 1.5 mmoles (%) = 35; GC/MS (100 µmol/ml in CH2Cl2) m/z = 314; 1H-NMR (0.1 M in CDCl3, 499.428 MHz)The methyl H atoms were constrained to an ideal geometry (C—H = 0.96 Å) with Uiso(H)= 1.5Ueq(C), but were allowed to rotate freely about the C—C bonds. All remaining H atoms were placed in geometrically idealized positions and constrained to ride on their parent atoms with Uiso(H) = 1.2Ueq(parent atom).
Complex pyrroles are important synthons in macromolecular chemistry, environmental chemistry, medical chemistry and nano-technologies based on polymeric organic materials. Following our endeavor in synthesizing new pyrrolic compounds for material chemistry (Andrade et al., 2008; Ramos Silva et al., 2002; Sobral & Rocha Gonsalves 2001a, 2001b; Sobral, 2006), we prepared the title compound, by the Paal-Knorr methodology, using iodine as catalyst. Each molecule contains a crystallographic inversion centre at the mid-point of the bond common to both rings of the naphthalene moiety. All bond lengths and valency angles of the molecule lie within the expected range of values for naphtalene derivatives.
Approximate σ C—N bond is expected. Thus, the conformation observed for such groups in the solid state should be determined by steric rather than electronic effects. We observe in this structure a value of 86.11 (15)° for the C9–C8–N1–C1 dihedral angle, which is close to the a priori expected ideal value of 90° where the steric effects should be at a minimum.
of the pyrrolyl group around the formalIn order to gain some insight into how the crystal packing might affect the molecular geometry we have performed a quantum chemical calculation on the equilibrium geometry of the free molecule. These calculations were performed with the computer program GAMESS (Schmidt et al., 1993). A
Roothan Hartree-Fock method was used with an extended 6–31 G(d,p) basis set. Tight conditions for convergence of both the self-consistent field cycles and maximum density and energy gradient variations were imposed (10-6atomic units). The program was run on the Milipeia cluster of UC-LCA (using 16 Opteron cores, 2.2 GHz runing Linux).The ab-initio calculations reproduce well the observed experimental bond length and angles of the molecule. All angles match the experimental values within 1°. Calculated and experimental bond distances agree within 0.023 Å. The calculated C9–C8–N1–C1 dihedral angle is 91.82°, a value closer to the ideal value of 90° than the experimental value in the solid state.
A check for weak intermolecular interactions in the crystal on the basis of short contacts revealed that a possible C—H···π interaction may exist between atoms C2 and the pyrrole ring [C2—H2···Cg: 3.7791 (16) Å, 159°]
For related compounds, please see: Andrade et al. (2008); Ramos Silva et al. (2002); Sobral (2006); Sobral & Rocha Gonsalves (2001a,b). For the ab initio calculation method, please see: Schmidt et al. (1993).
Data collection: APEX2 (Bruker, 2003); cell
SAINT (Bruker, 2003); data reduction: SAINT (Bruker, 2003); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).Fig. 1. Ellipsoid plot of the title compound. Displacement ellipsoids are drawn at the 50% level. Unlabelled atoms are generated by inversion through the origin. |
C22H22N2 | F(000) = 336 |
Mr = 314.42 | Dx = 1.182 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 8233 reflections |
a = 8.7562 (3) Å | θ = 2.4–28.6° |
b = 7.2806 (2) Å | µ = 0.07 mm−1 |
c = 14.1380 (5) Å | T = 293 K |
β = 101.4721 (16)° | Plate, brown |
V = 883.30 (5) Å3 | 0.30 × 0.30 × 0.02 mm |
Z = 2 |
Bruker APEXII CCD area-detector diffractometer | 2415 independent reflections |
Radiation source: fine-focus sealed tube | 1798 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.028 |
φ and ω scans | θmax = 29.5°, θmin = 2.4° |
Absorption correction: multi-scan (SADABS; Sheldrick, 2000) | h = −12→11 |
Tmin = 0.892, Tmax = 0.999 | k = −10→9 |
23689 measured reflections | l = −18→19 |
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)] = 0.044 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.160 | H-atom parameters constrained |
S = 1.11 | w = 1/[σ2(Fo2) + (0.0861P)2 + 0.0939P] where P = (Fo2 + 2Fc2)/3 |
2415 reflections | (Δ/σ)max < 0.001 |
111 parameters | Δρmax = 0.19 e Å−3 |
0 restraints | Δρmin = −0.20 e Å−3 |
C22H22N2 | V = 883.30 (5) Å3 |
Mr = 314.42 | Z = 2 |
Monoclinic, P21/c | Mo Kα radiation |
a = 8.7562 (3) Å | µ = 0.07 mm−1 |
b = 7.2806 (2) Å | T = 293 K |
c = 14.1380 (5) Å | 0.30 × 0.30 × 0.02 mm |
β = 101.4721 (16)° |
Bruker APEXII CCD area-detector diffractometer | 2415 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 2000) | 1798 reflections with I > 2σ(I) |
Tmin = 0.892, Tmax = 0.999 | Rint = 0.028 |
23689 measured reflections |
R[F2 > 2σ(F2)] = 0.044 | 0 restraints |
wR(F2) = 0.160 | H-atom parameters constrained |
S = 1.11 | Δρmax = 0.19 e Å−3 |
2415 reflections | Δρmin = −0.20 e Å−3 |
111 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. |
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. |
x | y | z | Uiso*/Ueq | ||
N1 | −0.25783 (11) | 0.16842 (14) | −0.15743 (7) | 0.0413 (3) | |
C1 | −0.37264 (14) | 0.28237 (17) | −0.13576 (10) | 0.0457 (3) | |
C2 | −0.40388 (17) | 0.41020 (19) | −0.20743 (11) | 0.0581 (4) | |
H2 | −0.4765 | 0.5046 | −0.2117 | 0.070* | |
C4 | −0.21687 (17) | 0.2256 (2) | −0.24234 (10) | 0.0543 (4) | |
C3 | −0.3073 (2) | 0.3747 (2) | −0.27363 (11) | 0.0644 (5) | |
H3 | −0.3054 | 0.4416 | −0.3294 | 0.077* | |
C5 | −0.4403 (2) | 0.2558 (2) | −0.04885 (14) | 0.0677 (5) | |
H5A | −0.5235 | 0.3419 | −0.0496 | 0.102* | |
H5B | −0.3612 | 0.2752 | 0.0079 | 0.102* | |
H5C | −0.4800 | 0.1329 | −0.0484 | 0.102* | |
C6 | −0.0984 (3) | 0.1270 (3) | −0.28455 (14) | 0.0867 (6) | |
H6A | −0.0887 | 0.1846 | −0.3441 | 0.130* | |
H6B | −0.1298 | 0.0015 | −0.2966 | 0.130* | |
H6C | 0.0001 | 0.1310 | −0.2403 | 0.130* | |
C7 | −0.03746 (12) | 0.07020 (14) | −0.03141 (8) | 0.0338 (3) | |
C8 | −0.18058 (13) | 0.02723 (15) | −0.09515 (8) | 0.0374 (3) | |
C9 | −0.24388 (15) | −0.14418 (17) | −0.09648 (10) | 0.0472 (3) | |
H9 | −0.3369 | −0.1703 | −0.1389 | 0.057* | |
C10 | −0.16905 (15) | −0.28164 (17) | −0.03401 (10) | 0.0478 (3) | |
H10 | −0.2135 | −0.3978 | −0.0352 | 0.057* | |
C11 | −0.03195 (14) | −0.24638 (15) | 0.02834 (9) | 0.0403 (3) | |
H11 | 0.0162 | −0.3387 | 0.0691 | 0.048* |
U11 | U22 | U33 | U12 | U13 | U23 | |
N1 | 0.0373 (5) | 0.0397 (5) | 0.0418 (6) | 0.0034 (4) | −0.0041 (4) | 0.0032 (4) |
C1 | 0.0380 (6) | 0.0377 (6) | 0.0544 (7) | 0.0016 (5) | −0.0074 (5) | −0.0072 (5) |
C2 | 0.0550 (9) | 0.0415 (7) | 0.0643 (9) | 0.0071 (6) | −0.0209 (7) | −0.0012 (6) |
C4 | 0.0542 (8) | 0.0616 (9) | 0.0425 (7) | 0.0017 (6) | −0.0016 (6) | 0.0083 (6) |
C3 | 0.0725 (10) | 0.0591 (9) | 0.0505 (8) | −0.0008 (7) | −0.0144 (7) | 0.0161 (7) |
C5 | 0.0623 (10) | 0.0612 (9) | 0.0825 (11) | 0.0101 (7) | 0.0214 (8) | −0.0053 (8) |
C6 | 0.0921 (14) | 0.1113 (16) | 0.0625 (10) | 0.0227 (12) | 0.0292 (10) | 0.0146 (10) |
C7 | 0.0322 (6) | 0.0315 (5) | 0.0362 (6) | 0.0009 (4) | 0.0033 (4) | 0.0000 (4) |
C8 | 0.0344 (6) | 0.0360 (6) | 0.0390 (6) | 0.0030 (4) | 0.0003 (5) | 0.0012 (4) |
C9 | 0.0376 (7) | 0.0421 (6) | 0.0551 (7) | −0.0048 (5) | −0.0071 (5) | −0.0012 (5) |
C10 | 0.0444 (7) | 0.0332 (6) | 0.0611 (8) | −0.0075 (5) | −0.0012 (6) | 0.0011 (5) |
C11 | 0.0401 (6) | 0.0316 (5) | 0.0468 (7) | 0.0005 (4) | 0.0026 (5) | 0.0042 (4) |
N1—C4 | 1.3835 (17) | C6—H6A | 0.9600 |
N1—C1 | 1.3840 (16) | C6—H6B | 0.9600 |
N1—C8 | 1.4326 (14) | C6—H6C | 0.9600 |
C1—C2 | 1.3628 (19) | C7—C11i | 1.4164 (15) |
C1—C5 | 1.479 (2) | C7—C8 | 1.4253 (15) |
C2—C3 | 1.404 (3) | C7—C7i | 1.426 (2) |
C2—H2 | 0.9300 | C8—C9 | 1.3642 (17) |
C4—C3 | 1.365 (2) | C9—C10 | 1.4075 (18) |
C4—C6 | 1.481 (2) | C9—H9 | 0.9300 |
C3—H3 | 0.9300 | C10—C11 | 1.3649 (17) |
C5—H5A | 0.9600 | C10—H10 | 0.9300 |
C5—H5B | 0.9600 | C11—C7i | 1.4164 (15) |
C5—H5C | 0.9600 | C11—H11 | 0.9300 |
C4—N1—C1 | 109.68 (11) | C4—C6—H6A | 109.5 |
C4—N1—C8 | 125.23 (11) | C4—C6—H6B | 109.5 |
C1—N1—C8 | 124.69 (11) | H6A—C6—H6B | 109.5 |
C2—C1—N1 | 106.98 (13) | C4—C6—H6C | 109.5 |
C2—C1—C5 | 130.75 (14) | H6A—C6—H6C | 109.5 |
N1—C1—C5 | 122.26 (12) | H6B—C6—H6C | 109.5 |
C1—C2—C3 | 108.15 (13) | C11i—C7—C8 | 122.42 (10) |
C1—C2—H2 | 125.9 | C11i—C7—C7i | 119.26 (12) |
C3—C2—H2 | 125.9 | C8—C7—C7i | 118.32 (12) |
C3—C4—N1 | 106.65 (14) | C9—C8—C7 | 120.88 (10) |
C3—C4—C6 | 131.51 (15) | C9—C8—N1 | 120.47 (10) |
N1—C4—C6 | 121.82 (13) | C7—C8—N1 | 118.64 (10) |
C4—C3—C2 | 108.53 (13) | C8—C9—C10 | 120.31 (11) |
C4—C3—H3 | 125.7 | C8—C9—H9 | 119.8 |
C2—C3—H3 | 125.7 | C10—C9—H9 | 119.8 |
C1—C5—H5A | 109.5 | C11—C10—C9 | 120.76 (11) |
C1—C5—H5B | 109.5 | C11—C10—H10 | 119.6 |
H5A—C5—H5B | 109.5 | C9—C10—H10 | 119.6 |
C1—C5—H5C | 109.5 | C10—C11—C7i | 120.47 (11) |
H5A—C5—H5C | 109.5 | C10—C11—H11 | 119.8 |
H5B—C5—H5C | 109.5 | C7i—C11—H11 | 119.8 |
C4—N1—C1—C2 | 0.28 (14) | C11i—C7—C8—C9 | 179.75 (12) |
C8—N1—C1—C2 | 173.32 (11) | C7i—C7—C8—C9 | −0.4 (2) |
C4—N1—C1—C5 | −179.96 (13) | C11i—C7—C8—N1 | −0.83 (18) |
C8—N1—C1—C5 | −6.91 (19) | C7i—C7—C8—N1 | 179.03 (12) |
N1—C1—C2—C3 | −0.09 (15) | C4—N1—C8—C9 | −101.92 (16) |
C5—C1—C2—C3 | −179.82 (15) | C1—N1—C8—C9 | 86.11 (15) |
C1—N1—C4—C3 | −0.36 (16) | C4—N1—C8—C7 | 78.66 (16) |
C8—N1—C4—C3 | −173.36 (11) | C1—N1—C8—C7 | −93.32 (14) |
C1—N1—C4—C6 | −178.79 (15) | C7—C8—C9—C10 | 0.5 (2) |
C8—N1—C4—C6 | 8.2 (2) | N1—C8—C9—C10 | −178.89 (12) |
N1—C4—C3—C2 | 0.30 (17) | C8—C9—C10—C11 | −0.4 (2) |
C6—C4—C3—C2 | 178.52 (17) | C9—C10—C11—C7i | 0.1 (2) |
C1—C2—C3—C4 | −0.14 (17) |
Symmetry code: (i) −x, −y, −z. |
Experimental details
Crystal data | |
Chemical formula | C22H22N2 |
Mr | 314.42 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 293 |
a, b, c (Å) | 8.7562 (3), 7.2806 (2), 14.1380 (5) |
β (°) | 101.4721 (16) |
V (Å3) | 883.30 (5) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 0.07 |
Crystal size (mm) | 0.30 × 0.30 × 0.02 |
Data collection | |
Diffractometer | Bruker APEXII CCD area-detector |
Absorption correction | Multi-scan (SADABS; Sheldrick, 2000) |
Tmin, Tmax | 0.892, 0.999 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 23689, 2415, 1798 |
Rint | 0.028 |
(sin θ/λ)max (Å−1) | 0.692 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.044, 0.160, 1.11 |
No. of reflections | 2415 |
No. of parameters | 111 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.19, −0.20 |
Computer programs: APEX2 (Bruker, 2003), SAINT (Bruker, 2003), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), PLATON (Spek, 2009).
Acknowledgements
We gratefully acknowledge LCA-UC for a grant of computer time in the Milipeia cluster.
References
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This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
Complex pyrroles are important synthons in macromolecular chemistry, environmental chemistry, medical chemistry and nano-technologies based on polymeric organic materials. Following our endeavor in synthesizing new pyrrolic compounds for material chemistry (Andrade et al., 2008; Ramos Silva et al., 2002; Sobral & Rocha Gonsalves 2001a, 2001b; Sobral, 2006), we prepared the title compound, by the Paal-Knorr methodology, using iodine as catalyst. Each molecule contains a crystallographic inversion centre at the mid-point of the bond common to both rings of the naphthalene moiety. All bond lengths and valency angles of the molecule lie within the expected range of values for naphtalene derivatives.
Approximate free rotation of the pyrrolyl group around the formal σ C—N bond is expected. Thus, the conformation observed for such groups in the solid state should be determined by steric rather than electronic effects. We observe in this structure a value of 86.11 (15)° for the C9–C8–N1–C1 dihedral angle, which is close to the a priori expected ideal value of 90° where the steric effects should be at a minimum.
In order to gain some insight into how the crystal packing might affect the molecular geometry we have performed a quantum chemical calculation on the equilibrium geometry of the free molecule. These calculations were performed with the computer program GAMESS (Schmidt et al., 1993). A molecular orbital Roothan Hartree-Fock method was used with an extended 6–31 G(d,p) basis set. Tight conditions for convergence of both the self-consistent field cycles and maximum density and energy gradient variations were imposed (10-6atomic units). The program was run on the Milipeia cluster of UC-LCA (using 16 Opteron cores, 2.2 GHz runing Linux).
The ab-initio calculations reproduce well the observed experimental bond length and angles of the molecule. All angles match the experimental values within 1°. Calculated and experimental bond distances agree within 0.023 Å. The calculated C9–C8–N1–C1 dihedral angle is 91.82°, a value closer to the ideal value of 90° than the experimental value in the solid state.
A check for weak intermolecular interactions in the crystal on the basis of short contacts revealed that a possible C—H···π interaction may exist between atoms C2 and the pyrrole ring [C2—H2···Cg: 3.7791 (16) Å, 159°]