organic compounds
5,5-Dimethyl-2,2-bis(pyridin-2-yl)-1,3-diazinane
aDepartment of Chemistry, College of Science, King Saud University, PO Box 2455, Riyadh 11451, Saudi Arabia, bDepartment of Chemistry, College of Science, University of Hail, PO Box 2440, Hail, Saudi Arabia, and cH.E.J. Research Institute of Chemistry, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan
*Correspondence e-mail: dr.sammer.yousuf@gmail.com
In the molecule of the title compound, C16H20N4, the 1,3-diazinane ring adopts a chair conformation and the dihedral angle formed by the pyridine rings is 78.64 (8)°. The molecular conformation is stabilized by an intramolecular C—H⋯N hydrogen bond, forming an S(6) ring motif. In the crystal, centrosymmetrically related molecules are linked into dimers by pairs of N—H⋯N hydrogen bonds, generating rings of R22(10) graph-set motif.
Related literature
For the structures of related hexahydropyrimidines, see: Al-Resayes (2009); Song et al. (2010); Jayaratna & Norman (2010); Fun & Kia (2008). For standard bond lengths, see: Allen et al. (1987).
Experimental
Crystal data
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Refinement
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Data collection: SMART (Bruker, 2000); cell SAINT (Bruker, 2000); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL, PARST (Nardelli, 1995) and PLATON (Spek, 2009).
Supporting information
10.1107/S1600536812021629/rz2740sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536812021629/rz2740Isup2.hkl
Supporting information file. DOI: 10.1107/S1600536812021629/rz2740Isup3.cml
A solution of 2-dipyridlketone (0.5 g, 2.9 mmol) in anhydrous ethanol (15 mL) was mixed with 2,2-dimethyl-1,3-propanediamine (0.22 mL, 3.0 mmoL) and allowed to reflux for about six hours. The resulting mixture was concentrated under reduced pressure and the title compound was precipitated by the addition of 50 mL of ice cool distilled water. The precipitates were filtered off, washed three times with 20 mL of distilled water, recrystallized in ethanol and allowed to stand at room temperature. After three days, colourless crystals suitable for single-crystal X-ray data collection were obtained (0.63 g, yield 87%). All chemicals were purchased from Acros.
H Atoms on methyl, methylene and methine were positioned geometrically with C—H = 0.96 Å, 0.97 Å and 0.93 Å respectively, and constrained to ride on their parent atoms with Uiso(H) = 1.2Ueq(C) or 1.5Ueq(C) for methyl H atoms. N-bound H atoms were located in a difference Fourier map and refined isotropically (N–H = 0.87 (15)–0.88 (15) Å). A rotating group model was applied to the methyl groups.
Data collection: SMART (Bruker, 2000); cell
SAINT (Bruker, 2000); data reduction: SAINT (Bruker, 2000); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008), PARST (Nardelli, 1995) and PLATON (Spek, 2009).C16H20N4 | Z = 2 |
Mr = 268.36 | F(000) = 288 |
Triclinic, P1 | Dx = 1.191 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 8.5535 (7) Å | Cell parameters from 3809 reflections |
b = 8.7124 (8) Å | θ = 2.6–28.3° |
c = 11.7241 (10) Å | µ = 0.07 mm−1 |
α = 109.824 (2)° | T = 298 K |
β = 96.444 (2)° | Block, colourless |
γ = 109.658 (2)° | 0.48 × 0.42 × 0.39 mm |
V = 748.33 (11) Å3 |
Bruker SMART APEX CCD area-detector diffractometer | 2794 independent reflections |
Radiation source: fine-focus sealed tube | 2422 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.016 |
ω scan | θmax = 25.5°, θmin = 1.9° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −10→10 |
Tmin = 0.966, Tmax = 0.972 | k = −10→10 |
8514 measured reflections | l = −14→14 |
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)] = 0.040 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.107 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | w = 1/[σ2(Fo2) + (0.0507P)2 + 0.1284P] where P = (Fo2 + 2Fc2)/3 |
2794 reflections | (Δ/σ)max < 0.001 |
191 parameters | Δρmax = 0.15 e Å−3 |
0 restraints | Δρmin = −0.17 e Å−3 |
C16H20N4 | γ = 109.658 (2)° |
Mr = 268.36 | V = 748.33 (11) Å3 |
Triclinic, P1 | Z = 2 |
a = 8.5535 (7) Å | Mo Kα radiation |
b = 8.7124 (8) Å | µ = 0.07 mm−1 |
c = 11.7241 (10) Å | T = 298 K |
α = 109.824 (2)° | 0.48 × 0.42 × 0.39 mm |
β = 96.444 (2)° |
Bruker SMART APEX CCD area-detector diffractometer | 2794 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | 2422 reflections with I > 2σ(I) |
Tmin = 0.966, Tmax = 0.972 | Rint = 0.016 |
8514 measured reflections |
R[F2 > 2σ(F2)] = 0.040 | 0 restraints |
wR(F2) = 0.107 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | Δρmax = 0.15 e Å−3 |
2794 reflections | Δρmin = −0.17 e Å−3 |
191 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 | 0.77584 (15) | 0.69943 (16) | 0.23880 (11) | 0.0588 (3) | |
N2 | 0.52797 (14) | 0.27820 (13) | 0.38100 (9) | 0.0441 (3) | |
N3 | 0.48652 (13) | 0.40322 (14) | 0.11970 (9) | 0.0414 (3) | |
N4 | 0.45050 (13) | 0.53799 (13) | 0.32684 (9) | 0.0408 (3) | |
C1 | 0.9335 (2) | 0.8284 (2) | 0.28056 (17) | 0.0732 (5) | |
H1B | 0.9634 | 0.9024 | 0.2381 | 0.088* | |
C2 | 1.0538 (2) | 0.8587 (2) | 0.38177 (17) | 0.0741 (5) | |
H2B | 1.1621 | 0.9506 | 0.4075 | 0.089* | |
C3 | 1.0101 (2) | 0.7500 (2) | 0.44384 (18) | 0.0772 (5) | |
H3B | 1.0884 | 0.7667 | 0.5133 | 0.093* | |
C4 | 0.84908 (19) | 0.6155 (2) | 0.40254 (14) | 0.0635 (4) | |
H4B | 0.8173 | 0.5398 | 0.4436 | 0.076* | |
C5 | 0.73434 (16) | 0.59355 (16) | 0.29919 (11) | 0.0418 (3) | |
C6 | 0.54948 (15) | 0.45228 (15) | 0.25295 (10) | 0.0371 (3) | |
C7 | 0.54779 (14) | 0.28446 (15) | 0.27106 (10) | 0.0371 (3) | |
C8 | 0.57432 (17) | 0.15174 (17) | 0.17968 (12) | 0.0464 (3) | |
H8A | 0.5886 | 0.1597 | 0.1041 | 0.056* | |
C9 | 0.57920 (19) | 0.00820 (18) | 0.20247 (13) | 0.0557 (4) | |
H9A | 0.5958 | −0.0825 | 0.1421 | 0.067* | |
C10 | 0.55928 (18) | 0.00035 (17) | 0.31533 (13) | 0.0529 (3) | |
H10A | 0.5625 | −0.0949 | 0.3332 | 0.063* | |
C11 | 0.53455 (18) | 0.13749 (17) | 0.40084 (12) | 0.0495 (3) | |
H11A | 0.5215 | 0.1325 | 0.4774 | 0.059* | |
C12 | 0.30105 (16) | 0.30123 (17) | 0.07347 (11) | 0.0452 (3) | |
H12A | 0.2747 | 0.1844 | 0.0745 | 0.054* | |
H12B | 0.2666 | 0.2844 | −0.0131 | 0.054* | |
C13 | 0.19391 (16) | 0.38596 (18) | 0.14765 (12) | 0.0482 (3) | |
C14 | 0.26589 (16) | 0.42847 (18) | 0.28538 (12) | 0.0481 (3) | |
H14A | 0.2074 | 0.4911 | 0.3369 | 0.058* | |
H14B | 0.2444 | 0.3183 | 0.2962 | 0.058* | |
C15 | 0.0071 (2) | 0.2539 (2) | 0.10458 (17) | 0.0744 (5) | |
H15A | 0.0000 | 0.1476 | 0.1154 | 0.112* | |
H15B | −0.0376 | 0.2248 | 0.0176 | 0.112* | |
H15C | −0.0588 | 0.3060 | 0.1535 | 0.112* | |
C16 | 0.2069 (2) | 0.5537 (2) | 0.12841 (15) | 0.0634 (4) | |
H16A | 0.1669 | 0.5240 | 0.0407 | 0.095* | |
H16B | 0.3243 | 0.6381 | 0.1585 | 0.095* | |
H16C | 0.1376 | 0.6048 | 0.1739 | 0.095* | |
H4A | 0.4891 (17) | 0.5588 (17) | 0.4059 (14) | 0.049 (4)* | |
H3A | 0.5166 (18) | 0.502 (2) | 0.1080 (13) | 0.051 (4)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
N1 | 0.0570 (7) | 0.0547 (7) | 0.0576 (7) | 0.0107 (6) | 0.0113 (6) | 0.0271 (6) |
N2 | 0.0578 (6) | 0.0430 (6) | 0.0357 (5) | 0.0239 (5) | 0.0133 (5) | 0.0164 (4) |
N3 | 0.0465 (6) | 0.0455 (6) | 0.0314 (5) | 0.0176 (5) | 0.0093 (4) | 0.0156 (4) |
N4 | 0.0509 (6) | 0.0441 (6) | 0.0308 (5) | 0.0250 (5) | 0.0112 (4) | 0.0130 (4) |
C1 | 0.0675 (10) | 0.0612 (9) | 0.0758 (11) | 0.0059 (8) | 0.0196 (9) | 0.0294 (8) |
C2 | 0.0477 (8) | 0.0607 (10) | 0.0834 (12) | 0.0063 (7) | 0.0121 (8) | 0.0102 (9) |
C3 | 0.0560 (10) | 0.0700 (10) | 0.0780 (11) | 0.0142 (8) | −0.0112 (8) | 0.0177 (9) |
C4 | 0.0582 (9) | 0.0594 (9) | 0.0599 (9) | 0.0138 (7) | −0.0033 (7) | 0.0246 (7) |
C5 | 0.0463 (7) | 0.0389 (6) | 0.0384 (6) | 0.0190 (5) | 0.0105 (5) | 0.0115 (5) |
C6 | 0.0440 (6) | 0.0386 (6) | 0.0294 (6) | 0.0187 (5) | 0.0099 (5) | 0.0120 (5) |
C7 | 0.0383 (6) | 0.0380 (6) | 0.0328 (6) | 0.0158 (5) | 0.0078 (5) | 0.0116 (5) |
C8 | 0.0555 (8) | 0.0464 (7) | 0.0395 (6) | 0.0249 (6) | 0.0171 (6) | 0.0140 (5) |
C9 | 0.0697 (9) | 0.0459 (7) | 0.0539 (8) | 0.0322 (7) | 0.0197 (7) | 0.0126 (6) |
C10 | 0.0636 (9) | 0.0413 (7) | 0.0568 (8) | 0.0246 (6) | 0.0116 (6) | 0.0208 (6) |
C11 | 0.0623 (8) | 0.0482 (7) | 0.0434 (7) | 0.0245 (6) | 0.0138 (6) | 0.0223 (6) |
C12 | 0.0490 (7) | 0.0460 (7) | 0.0341 (6) | 0.0176 (6) | 0.0044 (5) | 0.0123 (5) |
C13 | 0.0436 (7) | 0.0511 (7) | 0.0481 (7) | 0.0204 (6) | 0.0081 (6) | 0.0175 (6) |
C14 | 0.0508 (7) | 0.0547 (8) | 0.0476 (7) | 0.0277 (6) | 0.0208 (6) | 0.0216 (6) |
C15 | 0.0485 (9) | 0.0805 (11) | 0.0793 (11) | 0.0187 (8) | 0.0106 (8) | 0.0238 (9) |
C16 | 0.0696 (10) | 0.0649 (9) | 0.0607 (9) | 0.0374 (8) | 0.0055 (7) | 0.0241 (7) |
N1—C5 | 1.3256 (17) | C8—C9 | 1.3771 (18) |
N1—C1 | 1.3339 (19) | C8—H8A | 0.9300 |
N2—C7 | 1.3354 (15) | C9—C10 | 1.374 (2) |
N2—C11 | 1.3406 (16) | C9—H9A | 0.9300 |
N3—C6 | 1.4549 (14) | C10—C11 | 1.3721 (19) |
N3—C12 | 1.4601 (16) | C10—H10A | 0.9300 |
N3—H3A | 0.878 (15) | C11—H11A | 0.9300 |
N4—C14 | 1.4627 (16) | C12—C13 | 1.5296 (18) |
N4—C6 | 1.4751 (14) | C12—H12A | 0.9700 |
N4—H4A | 0.883 (15) | C12—H12B | 0.9700 |
C1—C2 | 1.367 (3) | C13—C15 | 1.5230 (19) |
C1—H1B | 0.9300 | C13—C16 | 1.5231 (19) |
C2—C3 | 1.362 (3) | C13—C14 | 1.5301 (18) |
C2—H2B | 0.9300 | C14—H14A | 0.9700 |
C3—C4 | 1.373 (2) | C14—H14B | 0.9700 |
C3—H3B | 0.9300 | C15—H15A | 0.9600 |
C4—C5 | 1.3847 (19) | C15—H15B | 0.9600 |
C4—H4B | 0.9300 | C15—H15C | 0.9600 |
C5—C6 | 1.5345 (16) | C16—H16A | 0.9600 |
C6—C7 | 1.5428 (16) | C16—H16B | 0.9600 |
C7—C8 | 1.3883 (16) | C16—H16C | 0.9600 |
C5—N1—C1 | 117.63 (13) | C8—C9—H9A | 120.3 |
C7—N2—C11 | 117.43 (11) | C11—C10—C9 | 117.89 (12) |
C6—N3—C12 | 113.05 (9) | C11—C10—H10A | 121.1 |
C6—N3—H3A | 107.0 (9) | C9—C10—H10A | 121.1 |
C12—N3—H3A | 110.8 (9) | N2—C11—C10 | 124.11 (12) |
C14—N4—C6 | 112.88 (9) | N2—C11—H11A | 117.9 |
C14—N4—H4A | 109.5 (9) | C10—C11—H11A | 117.9 |
C6—N4—H4A | 107.7 (9) | N3—C12—C13 | 114.99 (10) |
N1—C1—C2 | 124.19 (16) | N3—C12—H12A | 108.5 |
N1—C1—H1B | 117.9 | C13—C12—H12A | 108.5 |
C2—C1—H1B | 117.9 | N3—C12—H12B | 108.5 |
C3—C2—C1 | 117.92 (15) | C13—C12—H12B | 108.5 |
C3—C2—H2B | 121.0 | H12A—C12—H12B | 107.5 |
C1—C2—H2B | 121.0 | C15—C13—C16 | 109.87 (12) |
C2—C3—C4 | 119.16 (16) | C15—C13—C12 | 109.76 (11) |
C2—C3—H3B | 120.4 | C16—C13—C12 | 109.97 (11) |
C4—C3—H3B | 120.4 | C15—C13—C14 | 109.29 (12) |
C3—C4—C5 | 119.43 (15) | C16—C13—C14 | 111.33 (11) |
C3—C4—H4B | 120.3 | C12—C13—C14 | 106.57 (10) |
C5—C4—H4B | 120.3 | N4—C14—C13 | 111.30 (10) |
N1—C5—C4 | 121.67 (13) | N4—C14—H14A | 109.4 |
N1—C5—C6 | 116.42 (11) | C13—C14—H14A | 109.4 |
C4—C5—C6 | 121.82 (12) | N4—C14—H14B | 109.4 |
N3—C6—N4 | 111.25 (9) | C13—C14—H14B | 109.4 |
N3—C6—C5 | 109.18 (9) | H14A—C14—H14B | 108.0 |
N4—C6—C5 | 105.31 (9) | C13—C15—H15A | 109.5 |
N3—C6—C7 | 108.16 (9) | C13—C15—H15B | 109.5 |
N4—C6—C7 | 113.60 (9) | H15A—C15—H15B | 109.5 |
C5—C6—C7 | 109.24 (9) | C13—C15—H15C | 109.5 |
N2—C7—C8 | 122.12 (11) | H15A—C15—H15C | 109.5 |
N2—C7—C6 | 116.56 (10) | H15B—C15—H15C | 109.5 |
C8—C7—C6 | 121.24 (10) | C13—C16—H16A | 109.5 |
C9—C8—C7 | 119.09 (12) | C13—C16—H16B | 109.5 |
C9—C8—H8A | 120.5 | H16A—C16—H16B | 109.5 |
C7—C8—H8A | 120.5 | C13—C16—H16C | 109.5 |
C10—C9—C8 | 119.35 (12) | H16A—C16—H16C | 109.5 |
C10—C9—H9A | 120.3 | H16B—C16—H16C | 109.5 |
C5—N1—C1—C2 | −0.5 (3) | C11—N2—C7—C6 | −176.83 (10) |
N1—C1—C2—C3 | 0.1 (3) | N3—C6—C7—N2 | −151.87 (10) |
C1—C2—C3—C4 | 0.2 (3) | N4—C6—C7—N2 | −27.85 (14) |
C2—C3—C4—C5 | −0.3 (3) | C5—C6—C7—N2 | 89.39 (12) |
C1—N1—C5—C4 | 0.4 (2) | N3—C6—C7—C8 | 31.27 (15) |
C1—N1—C5—C6 | 177.15 (12) | N4—C6—C7—C8 | 155.30 (11) |
C3—C4—C5—N1 | −0.1 (2) | C5—C6—C7—C8 | −87.47 (13) |
C3—C4—C5—C6 | −176.63 (13) | N2—C7—C8—C9 | 0.47 (19) |
C12—N3—C6—N4 | −51.01 (13) | C6—C7—C8—C9 | 177.15 (11) |
C12—N3—C6—C5 | −166.81 (9) | C7—C8—C9—C10 | −0.6 (2) |
C12—N3—C6—C7 | 74.41 (12) | C8—C9—C10—C11 | 0.2 (2) |
C14—N4—C6—N3 | 55.48 (13) | C7—N2—C11—C10 | −0.4 (2) |
C14—N4—C6—C5 | 173.65 (9) | C9—C10—C11—N2 | 0.3 (2) |
C14—N4—C6—C7 | −66.85 (12) | C6—N3—C12—C13 | 52.20 (14) |
N1—C5—C6—N3 | 29.03 (14) | N3—C12—C13—C15 | −170.46 (11) |
C4—C5—C6—N3 | −154.24 (12) | N3—C12—C13—C16 | 68.56 (14) |
N1—C5—C6—N4 | −90.52 (12) | N3—C12—C13—C14 | −52.23 (14) |
C4—C5—C6—N4 | 86.21 (14) | C6—N4—C14—C13 | −58.94 (13) |
N1—C5—C6—C7 | 147.13 (11) | C15—C13—C14—N4 | 173.16 (11) |
C4—C5—C6—C7 | −36.15 (15) | C16—C13—C14—N4 | −65.29 (14) |
C11—N2—C7—C8 | 0.00 (18) | C12—C13—C14—N4 | 54.62 (13) |
D—H···A | D—H | H···A | D···A | D—H···A |
N4—H4A···N2i | 0.882 (15) | 2.469 (15) | 3.2048 (14) | 141.3 (13) |
C4—H4B···N2 | 0.93 | 2.55 | 3.187 (2) | 126 |
Symmetry code: (i) −x+1, −y+1, −z+1. |
Experimental details
Crystal data | |
Chemical formula | C16H20N4 |
Mr | 268.36 |
Crystal system, space group | Triclinic, P1 |
Temperature (K) | 298 |
a, b, c (Å) | 8.5535 (7), 8.7124 (8), 11.7241 (10) |
α, β, γ (°) | 109.824 (2), 96.444 (2), 109.658 (2) |
V (Å3) | 748.33 (11) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 0.07 |
Crystal size (mm) | 0.48 × 0.42 × 0.39 |
Data collection | |
Diffractometer | Bruker SMART APEX CCD area-detector diffractometer |
Absorption correction | Multi-scan (SADABS; Bruker, 2000) |
Tmin, Tmax | 0.966, 0.972 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 8514, 2794, 2422 |
Rint | 0.016 |
(sin θ/λ)max (Å−1) | 0.606 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.040, 0.107, 1.05 |
No. of reflections | 2794 |
No. of parameters | 191 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.15, −0.17 |
Computer programs: SMART (Bruker, 2000), SAINT (Bruker, 2000), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008), PARST (Nardelli, 1995) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
N4—H4A···N2i | 0.882 (15) | 2.469 (15) | 3.2048 (14) | 141.3 (13) |
C4—H4B···N2 | 0.9300 | 2.5500 | 3.187 (2) | 126.00 |
Symmetry code: (i) −x+1, −y+1, −z+1. |
Acknowledgements
IW, AA, SIA-R and MIC are thankful for the finanicial support of the King Saud University, Deanship of Scientific Research, College of Science Research Center for the research project.
References
Allen, F. H., Kennard, O., Watson, D. G., Brammer, L., Orpen, A. G. & Taylor, R. (1987). J. Chem. Soc. Perkin Trans. 2, pp. S1–19. CrossRef Web of Science Google Scholar
Al-Resayes, S. (2009). Acta Cryst. E65, o1874. Web of Science CSD CrossRef IUCr Journals Google Scholar
Bruker (2000). SADABS, SMART and SAINT. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Fun, H.-K. & Kia, R. (2008). Acta Cryst. E64, o1840–o1841. Web of Science CSD CrossRef IUCr Journals Google Scholar
Jayaratna, N. B. & Norman, R. E. (2010). Acta Cryst. E66, o3149. Web of Science CSD CrossRef IUCr Journals Google Scholar
Nardelli, M. (1995). J. Appl. Cryst. 28, 659. CrossRef IUCr Journals Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Song, X.-P., Li, G.-C., Wu, C.-Z. & Yang, F.-L. (2010). Acta Cryst. E66, o1083. Web of Science CSD CrossRef IUCr Journals Google Scholar
Spek, A. L. (2009). Acta Cryst. D65, 148–155. Web of Science CrossRef CAS IUCr Journals Google Scholar
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Condensation of 1,3-diamines with aldehydes and ketones is a well documented reaction for two potential products, classical Schiff bases and hexahydropyrimidine compounds (Al-Resayes, 2009; Song et al., 2010; Jayaratna, & Norman, 2010; Fun & Kia, 2008). Both of these products are extensively utilized as polydentate ligands to synthesize metal coordination complexes. The title compound was obtained during our attempt to synthesize novel ligands in order to study the coordination chemistry of targeted metals.
In the structure of the title compound (Fig. 1), the two pyridine (N1/C1–C5 and N2/C7–C11) rings are equatorially and axially orientated, respectively, with a dihedral angle of 78.64 (8)° between them. The six membered hexahydropyrimidine ring (N3/N4/C6/C12–C14) adopts a chair conformation, with puckering parameters Q = 0.5384 (14) Å, θ = 5.57 (15)° and ϕ = 179.9 (15)°. All bond lengths (Allen et al., 1987) and angles are in normal range. The molecular conformation is stabilized by a C4—H4B···N2 intramolecular hydrogen bond (Table 1). In the crystal structure, centrosymmetrically related molecules dimerize via pairs of N4—H4A···N2 intermolecular hydrogen bonds, generating rings of R22(10) graph-set motif (Fig. 2).