| Literature DB >> 21588388 |
Madhukar Hemamalini1, Hoong-Kun Fun.
Abstract
In the crystal structure of the title compound, C(6)H(9)N(2) (+)·0.5C(4)H(2)O(4) (2-)·0.5C(4)H(6)O(4), the fumarate dianion and fumaric acid mol-ecule are located on inversion centres. The 2-amino-5-methyl-pyrimidinium cation inter-acts with the carboxyl-ate group of the fumarate anion through a pair of N-H⋯O hydrogen bonds, forming an R(2) (2)(8) ring motif. These motifs are centrosymmetrically paired via N-H⋯O hydrogen bonds, forming a complementary DDAA array. The carboxyl groups of the fumaric acid mol-ecules and the carboxyl-ate groups of the fumarate anions are hydrogen bonded through O-H⋯O hydrogen bonds, leading to a supra-molecular chain along [101]. The crystal structure is further stabilized by weak C-H⋯O hydrogen bonds.Entities:
Year: 2010 PMID: 21588388 PMCID: PMC3007292 DOI: 10.1107/S1600536810027960
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C6H9N2+·0.5C4H4O42−·0.5C4H2O4 | |
| Triclinic, | |
| Hall symbol: -P 1 | Mo |
| Cell parameters from 9900 reflections | |
| θ = 2.7–37.6° | |
| µ = 0.11 mm−1 | |
| α = 94.030 (3)° | |
| β = 95.060 (3)° | Block, colourless |
| γ = 90.903 (3)° | 0.61 × 0.22 × 0.20 mm |
| Bruker APEXII DUO CCD area-detector diffractometer | 5445 independent reflections |
| Radiation source: fine-focus sealed tube | 4852 reflections with |
| graphite | |
| φ and ω scans | θmax = 37.7°, θmin = 1.5° |
| Absorption correction: multi-scan ( | |
| 19772 measured reflections |
| Refinement on | Primary atom site location: structure-invariant direct methods |
| Least-squares matrix: full | Secondary atom site location: difference Fourier map |
| Hydrogen site location: inferred from neighbouring sites | |
| H-atom parameters constrained | |
| 5445 reflections | (Δ/σ)max = 0.001 |
| 147 parameters | Δρmax = 0.60 e Å−3 |
| 0 restraints | Δρmin = −0.34 e Å−3 |
| Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K. |
| Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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. |
| N1 | 0.64925 (12) | 0.45378 (5) | 0.20997 (3) | 0.01315 (8) | |
| H1 | 0.5764 | 0.3700 | 0.1870 | 0.016* | |
| N2 | 0.31601 (12) | 0.55122 (5) | 0.09009 (3) | 0.01504 (9) | |
| H2A | 0.2404 | 0.4662 | 0.0712 | 0.018* | |
| H2B | 0.2451 | 0.6241 | 0.0605 | 0.018* | |
| C1 | 0.54215 (13) | 0.56996 (5) | 0.16485 (4) | 0.01190 (8) | |
| C2 | 0.67623 (13) | 0.70674 (5) | 0.20110 (4) | 0.01341 (9) | |
| H2 | 0.6147 | 0.7890 | 0.1706 | 0.016* | |
| C3 | 0.89669 (13) | 0.71642 (6) | 0.28125 (4) | 0.01392 (9) | |
| H3 | 0.9845 | 0.8062 | 0.3048 | 0.017* | |
| C4 | 0.99507 (13) | 0.59304 (6) | 0.32951 (4) | 0.01383 (9) | |
| C5 | 0.86767 (13) | 0.46307 (6) | 0.29027 (4) | 0.01433 (9) | |
| H5 | 0.9311 | 0.3795 | 0.3189 | 0.017* | |
| C6 | 1.21690 (15) | 0.60555 (7) | 0.42149 (4) | 0.01903 (10) | |
| H6A | 1.1001 | 0.6517 | 0.4716 | 0.029* | |
| H6B | 1.4123 | 0.6617 | 0.4131 | 0.029* | |
| H6C | 1.2803 | 0.5112 | 0.4388 | 0.029* | |
| O1 | 0.27081 (16) | 0.19332 (6) | 0.39352 (4) | 0.02686 (12) | |
| O2 | 0.49662 (14) | 0.03168 (5) | 0.29314 (3) | 0.02170 (10) | |
| H2C | 0.4257 | 0.0849 | 0.2522 | 0.033* | |
| C7 | 0.42204 (15) | 0.08387 (6) | 0.37847 (4) | 0.01544 (9) | |
| C8 | 0.54504 (15) | −0.00956 (6) | 0.45556 (4) | 0.01586 (9) | |
| H8 | 0.6889 | −0.0833 | 0.4410 | 0.019* | |
| O3 | 0.10076 (14) | 0.26911 (5) | 0.02053 (3) | 0.02176 (10) | |
| O4 | 0.34405 (13) | 0.19338 (5) | 0.15605 (3) | 0.02015 (10) | |
| C9 | 0.17514 (14) | 0.17185 (6) | 0.07482 (4) | 0.01450 (9) | |
| C10 | 0.06922 (15) | 0.01973 (6) | 0.04396 (4) | 0.01504 (9) | |
| H10 | 0.1014 | −0.0501 | 0.0880 | 0.018* |
| N1 | 0.01540 (17) | 0.00928 (16) | 0.01454 (17) | 0.00050 (13) | −0.00023 (13) | 0.00127 (13) |
| N2 | 0.01861 (19) | 0.01217 (18) | 0.01362 (17) | 0.00003 (14) | −0.00253 (14) | 0.00090 (14) |
| C1 | 0.01360 (18) | 0.01021 (18) | 0.01198 (18) | 0.00080 (14) | 0.00146 (14) | 0.00086 (14) |
| C2 | 0.0165 (2) | 0.00966 (18) | 0.01402 (19) | 0.00031 (15) | 0.00102 (15) | 0.00067 (14) |
| C3 | 0.01491 (19) | 0.01202 (19) | 0.01459 (19) | −0.00112 (15) | 0.00159 (15) | −0.00077 (15) |
| C4 | 0.01274 (18) | 0.0149 (2) | 0.01376 (19) | 0.00020 (15) | 0.00090 (14) | 0.00098 (15) |
| C5 | 0.01445 (19) | 0.0131 (2) | 0.0155 (2) | 0.00149 (15) | −0.00004 (15) | 0.00273 (15) |
| C6 | 0.0157 (2) | 0.0245 (3) | 0.0163 (2) | −0.00173 (18) | −0.00234 (16) | 0.00247 (19) |
| O1 | 0.0431 (3) | 0.0210 (2) | 0.01696 (19) | 0.0171 (2) | 0.00033 (18) | 0.00395 (16) |
| O2 | 0.0396 (3) | 0.01464 (18) | 0.01119 (16) | 0.00699 (17) | 0.00121 (16) | 0.00307 (13) |
| C7 | 0.0220 (2) | 0.01199 (19) | 0.01201 (18) | 0.00230 (16) | −0.00174 (16) | 0.00234 (15) |
| C8 | 0.0221 (2) | 0.0134 (2) | 0.01226 (19) | 0.00444 (17) | −0.00012 (16) | 0.00316 (15) |
| O3 | 0.0348 (2) | 0.01109 (17) | 0.01746 (18) | −0.00270 (15) | −0.01071 (16) | 0.00485 (14) |
| O4 | 0.0338 (2) | 0.01254 (17) | 0.01229 (16) | −0.00547 (15) | −0.00885 (15) | 0.00302 (13) |
| C9 | 0.0213 (2) | 0.01004 (18) | 0.01138 (18) | −0.00190 (15) | −0.00325 (15) | 0.00168 (14) |
| C10 | 0.0219 (2) | 0.01007 (18) | 0.01231 (19) | −0.00229 (16) | −0.00368 (15) | 0.00215 (14) |
| N1—C1 | 1.3492 (7) | C6—H6A | 0.9600 |
| N1—C5 | 1.3635 (7) | C6—H6B | 0.9600 |
| N1—H1 | 0.8600 | C6—H6C | 0.9600 |
| N2—C1 | 1.3271 (7) | O1—C7 | 1.2118 (7) |
| N2—H2A | 0.8600 | O2—C7 | 1.3199 (7) |
| N2—H2B | 0.8600 | O2—H2C | 0.8200 |
| C1—C2 | 1.4188 (8) | C7—C8 | 1.4903 (7) |
| C2—C3 | 1.3665 (7) | C8—C8i | 1.3285 (11) |
| C2—H2 | 0.9300 | C8—H8 | 0.9300 |
| C3—C4 | 1.4184 (8) | O3—C9 | 1.2468 (7) |
| C3—H3 | 0.9300 | O4—C9 | 1.2754 (6) |
| C4—C5 | 1.3671 (8) | C9—C10 | 1.4965 (8) |
| C4—C6 | 1.4992 (8) | C10—C10ii | 1.3314 (10) |
| C5—H5 | 0.9300 | C10—H10 | 0.9300 |
| C1—N1—C5 | 123.03 (5) | C4—C5—H5 | 119.4 |
| C1—N1—H1 | 118.5 | C4—C6—H6A | 109.5 |
| C5—N1—H1 | 118.5 | C4—C6—H6B | 109.5 |
| C1—N2—H2A | 120.0 | H6A—C6—H6B | 109.5 |
| C1—N2—H2B | 120.0 | C4—C6—H6C | 109.5 |
| H2A—N2—H2B | 120.0 | H6A—C6—H6C | 109.5 |
| N2—C1—N1 | 118.82 (5) | H6B—C6—H6C | 109.5 |
| N2—C1—C2 | 123.44 (5) | C7—O2—H2C | 109.5 |
| N1—C1—C2 | 117.73 (5) | O1—C7—O2 | 125.02 (5) |
| C3—C2—C1 | 119.37 (5) | O1—C7—C8 | 123.42 (5) |
| C3—C2—H2 | 120.3 | O2—C7—C8 | 111.56 (5) |
| C1—C2—H2 | 120.3 | C8i—C8—C7 | 121.87 (6) |
| C2—C3—C4 | 121.69 (5) | C8i—C8—H8 | 119.1 |
| C2—C3—H3 | 119.2 | C7—C8—H8 | 119.1 |
| C4—C3—H3 | 119.2 | O3—C9—O4 | 123.73 (5) |
| C5—C4—C3 | 116.88 (5) | O3—C9—C10 | 119.39 (5) |
| C5—C4—C6 | 121.66 (5) | O4—C9—C10 | 116.87 (4) |
| C3—C4—C6 | 121.41 (5) | C10ii—C10—C9 | 122.67 (6) |
| N1—C5—C4 | 121.22 (5) | C10ii—C10—H10 | 118.7 |
| N1—C5—H5 | 119.4 | C9—C10—H10 | 118.7 |
| C5—N1—C1—N2 | −176.50 (5) | C1—N1—C5—C4 | −0.74 (8) |
| C5—N1—C1—C2 | 2.78 (8) | C3—C4—C5—N1 | −1.74 (8) |
| N2—C1—C2—C3 | 176.95 (5) | C6—C4—C5—N1 | 175.74 (5) |
| N1—C1—C2—C3 | −2.29 (8) | O1—C7—C8—C8i | 10.08 (12) |
| C1—C2—C3—C4 | −0.13 (8) | O2—C7—C8—C8i | −169.47 (8) |
| C2—C3—C4—C5 | 2.14 (8) | O3—C9—C10—C10ii | 7.89 (11) |
| C2—C3—C4—C6 | −175.35 (5) | O4—C9—C10—C10ii | −170.95 (8) |
| H··· | ||||
| N1—H1···O4 | 0.86 | 1.89 | 2.7305 (7) | 167 |
| N2—H2A···O3 | 0.86 | 1.98 | 2.8334 (7) | 175 |
| N2—H2B···O3iii | 0.86 | 2.04 | 2.8329 (7) | 154 |
| O2—H2C···O4 | 0.82 | 1.75 | 2.5618 (7) | 170 |
| C5—H5···O1iv | 0.93 | 2.46 | 3.3582 (9) | 162 |
Hydrogen-bond geometry (Å, °)
| H⋯ | ||||
|---|---|---|---|---|
| N1—H1⋯O4 | 0.86 | 1.89 | 2.7305 (7) | 167 |
| N2—H2 | 0.86 | 1.98 | 2.8334 (7) | 175 |
| N2—H2 | 0.86 | 2.04 | 2.8329 (7) | 154 |
| O2—H2 | 0.82 | 1.75 | 2.5618 (7) | 170 |
| C5—H5⋯O1ii | 0.93 | 2.46 | 3.3582 (9) | 162 |
Symmetry codes: (i) ; (ii) .