| Literature DB >> 21579558 |
Madhukar Hemamalini1, Hoong-Kun Fun.
Abstract
The title salt, C(5)H(6)ClN(2) (+)·C(3)H(3)O(4) (-), contains two cations and two anions in the asymmetric unit. Both 2-amino-5-chloro-pyridinium ions are protonated at their pyridine N atoms and both hydrogen malonate ions feature an intra-molecular O-H⋯O hydrogen bond, which generates an S(6) ring motif and results in a folded conformation. In the crystal structure, the cations and anions are linked via N-H⋯O, O-H⋯O and C-H⋯O hydrogen bonds, forming chains propagating in [010], which are cross-linked by further C-H⋯O inter-actions.Entities:
Year: 2010 PMID: 21579558 PMCID: PMC2979552 DOI: 10.1107/S1600536810019677
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C5H6ClN2+·C3H3O4− | |
| Monoclinic, | Mo |
| Hall symbol: -P 2ybc | Cell parameters from 3966 reflections |
| θ = 2.6–29.5° | |
| µ = 0.38 mm−1 | |
| β = 94.518 (3)° | Needle, colourless |
| 0.22 × 0.14 × 0.07 mm | |
| Bruker APEXII DUO CCD diffractometer | 5811 independent reflections |
| Radiation source: fine-focus sealed tube | 4314 reflections with |
| graphite | |
| φ and ω scans | θmax = 30.1°, θmin = 1.3° |
| Absorption correction: multi-scan ( | |
| 22474 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 atoms treated by a mixture of independent and constrained refinement | |
| 5811 reflections | (Δ/σ)max = 0.001 |
| 343 parameters | Δρmax = 0.37 e Å−3 |
| 0 restraints | Δρmin = −0.29 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. |
| Cl1A | 1.10339 (2) | 0.51132 (2) | 0.62925 (6) | 0.02059 (10) | |
| N1A | 0.96753 (8) | 0.70248 (8) | 0.71311 (18) | 0.0154 (3) | |
| N2A | 0.98853 (9) | 0.83754 (8) | 0.6948 (2) | 0.0201 (3) | |
| C1A | 0.99204 (10) | 0.62574 (9) | 0.7005 (2) | 0.0158 (3) | |
| C2A | 1.07092 (10) | 0.60860 (9) | 0.6478 (2) | 0.0161 (3) | |
| C3A | 1.12584 (10) | 0.67048 (10) | 0.6084 (2) | 0.0185 (3) | |
| C4A | 1.10044 (10) | 0.74747 (9) | 0.6221 (2) | 0.0183 (3) | |
| C5A | 1.01808 (10) | 0.76410 (9) | 0.6772 (2) | 0.0153 (3) | |
| O1A | 0.80991 (7) | 0.72010 (7) | 0.78892 (17) | 0.0217 (3) | |
| O2A | 0.82767 (7) | 0.84610 (6) | 0.87375 (16) | 0.0188 (2) | |
| O3A | 0.59603 (7) | 0.85002 (7) | 1.08754 (16) | 0.0210 (3) | |
| O4A | 0.71363 (7) | 0.91411 (7) | 1.02782 (17) | 0.0202 (2) | |
| C6A | 0.78450 (10) | 0.78253 (9) | 0.8570 (2) | 0.0152 (3) | |
| C7A | 0.69498 (10) | 0.78000 (9) | 0.9200 (2) | 0.0150 (3) | |
| C8A | 0.66443 (10) | 0.85090 (9) | 1.0200 (2) | 0.0156 (3) | |
| Cl1B | 0.63656 (3) | 0.19876 (2) | 0.73072 (6) | 0.02333 (10) | |
| N1B | 0.49352 (8) | 0.38598 (8) | 0.80976 (18) | 0.0157 (3) | |
| N2B | 0.50075 (9) | 0.51989 (8) | 0.7476 (2) | 0.0208 (3) | |
| C1B | 0.52319 (10) | 0.31042 (9) | 0.8071 (2) | 0.0164 (3) | |
| C2B | 0.59873 (10) | 0.29500 (10) | 0.7381 (2) | 0.0175 (3) | |
| C3B | 0.64554 (10) | 0.35768 (10) | 0.6699 (2) | 0.0200 (3) | |
| C4B | 0.61446 (10) | 0.43307 (10) | 0.6713 (2) | 0.0192 (3) | |
| C5B | 0.53518 (10) | 0.44787 (9) | 0.7429 (2) | 0.0162 (3) | |
| O1B | 0.34096 (7) | 0.39509 (6) | 0.92022 (17) | 0.0215 (3) | |
| O2B | 0.33226 (7) | 0.52644 (6) | 0.89745 (17) | 0.0209 (3) | |
| O3B | 0.10788 (7) | 0.53283 (7) | 1.13690 (18) | 0.0270 (3) | |
| O4B | 0.21003 (7) | 0.59797 (7) | 1.01198 (17) | 0.0213 (3) | |
| C6B | 0.30412 (10) | 0.45958 (9) | 0.9424 (2) | 0.0157 (3) | |
| C7B | 0.22061 (10) | 0.45532 (9) | 1.0316 (2) | 0.0163 (3) | |
| C8B | 0.17473 (10) | 0.53207 (9) | 1.0644 (2) | 0.0172 (3) | |
| H1A | 0.9511 (11) | 0.5865 (11) | 0.730 (2) | 0.016 (4)* | |
| H1B | 0.4871 (12) | 0.2697 (12) | 0.856 (3) | 0.026 (5)* | |
| H3A | 1.1788 (13) | 0.6612 (11) | 0.572 (3) | 0.025 (5)* | |
| H3B | 0.7003 (13) | 0.3485 (11) | 0.623 (3) | 0.026 (5)* | |
| H4A | 1.1372 (13) | 0.7899 (12) | 0.597 (3) | 0.028 (5)* | |
| H4B | 0.6435 (13) | 0.4767 (12) | 0.626 (3) | 0.026 (5)* | |
| H7AA | 0.6570 (12) | 0.7744 (11) | 0.815 (3) | 0.023 (5)* | |
| H7AB | 0.6906 (13) | 0.7322 (12) | 0.991 (3) | 0.029 (5)* | |
| H7BA | 0.1847 (14) | 0.4223 (13) | 0.967 (3) | 0.035 (6)* | |
| H7BB | 0.2294 (13) | 0.4291 (12) | 1.145 (3) | 0.031 (6)* | |
| H1NA | 0.9120 (14) | 0.7144 (13) | 0.738 (3) | 0.035 (6)* | |
| H2NA | 0.9348 (14) | 0.8461 (12) | 0.743 (3) | 0.033 (6)* | |
| H3NA | 1.0235 (14) | 0.8762 (14) | 0.680 (3) | 0.041 (6)* | |
| H1NB | 0.4410 (14) | 0.3956 (12) | 0.851 (3) | 0.034 (6)* | |
| H2NB | 0.4509 (13) | 0.5249 (12) | 0.793 (3) | 0.028 (5)* | |
| H3NB | 0.5290 (14) | 0.5628 (14) | 0.702 (3) | 0.038 (6)* | |
| H1OA | 0.7643 (16) | 0.8995 (15) | 0.976 (3) | 0.051 (7)* | |
| H1OB | 0.2602 (17) | 0.5811 (16) | 0.965 (4) | 0.058 (8)* |
| Cl1A | 0.02137 (19) | 0.01383 (18) | 0.0268 (2) | 0.00466 (14) | 0.00314 (16) | −0.00142 (16) |
| N1A | 0.0130 (6) | 0.0137 (6) | 0.0202 (7) | −0.0002 (5) | 0.0045 (5) | −0.0004 (5) |
| N2A | 0.0188 (7) | 0.0131 (7) | 0.0292 (8) | −0.0008 (5) | 0.0074 (6) | 0.0005 (6) |
| C1A | 0.0172 (7) | 0.0120 (7) | 0.0182 (7) | −0.0011 (6) | 0.0025 (6) | −0.0002 (6) |
| C2A | 0.0172 (7) | 0.0128 (7) | 0.0182 (7) | 0.0019 (5) | 0.0016 (6) | −0.0007 (6) |
| C3A | 0.0134 (7) | 0.0198 (8) | 0.0228 (8) | 0.0008 (6) | 0.0054 (6) | −0.0010 (7) |
| C4A | 0.0161 (7) | 0.0156 (7) | 0.0238 (8) | −0.0030 (6) | 0.0054 (6) | 0.0015 (6) |
| C5A | 0.0165 (7) | 0.0147 (7) | 0.0149 (7) | −0.0015 (5) | 0.0018 (6) | 0.0004 (6) |
| O1A | 0.0173 (5) | 0.0146 (5) | 0.0346 (7) | −0.0007 (4) | 0.0101 (5) | −0.0051 (5) |
| O2A | 0.0185 (5) | 0.0132 (5) | 0.0255 (6) | −0.0037 (4) | 0.0074 (5) | −0.0022 (5) |
| O3A | 0.0193 (5) | 0.0195 (6) | 0.0250 (6) | 0.0019 (4) | 0.0080 (5) | −0.0011 (5) |
| O4A | 0.0225 (6) | 0.0123 (5) | 0.0272 (6) | −0.0009 (4) | 0.0096 (5) | −0.0026 (5) |
| C6A | 0.0155 (7) | 0.0137 (7) | 0.0165 (7) | 0.0004 (5) | 0.0023 (6) | 0.0013 (6) |
| C7A | 0.0150 (7) | 0.0122 (7) | 0.0178 (7) | −0.0013 (5) | 0.0023 (6) | −0.0001 (6) |
| C8A | 0.0187 (7) | 0.0128 (7) | 0.0154 (7) | 0.0016 (5) | 0.0026 (6) | 0.0025 (6) |
| Cl1B | 0.0262 (2) | 0.0190 (2) | 0.0250 (2) | 0.00833 (15) | 0.00331 (16) | 0.00035 (17) |
| N1B | 0.0148 (6) | 0.0144 (6) | 0.0184 (6) | −0.0006 (5) | 0.0038 (5) | 0.0001 (5) |
| N2B | 0.0198 (7) | 0.0146 (7) | 0.0288 (8) | −0.0001 (5) | 0.0081 (6) | 0.0015 (6) |
| C1B | 0.0177 (7) | 0.0140 (7) | 0.0174 (7) | −0.0003 (6) | 0.0011 (6) | 0.0013 (6) |
| C2B | 0.0191 (7) | 0.0166 (7) | 0.0164 (7) | 0.0037 (6) | −0.0006 (6) | −0.0007 (6) |
| C3B | 0.0161 (7) | 0.0249 (8) | 0.0195 (8) | 0.0010 (6) | 0.0053 (6) | −0.0024 (7) |
| C4B | 0.0176 (7) | 0.0194 (8) | 0.0212 (8) | −0.0032 (6) | 0.0061 (6) | −0.0009 (7) |
| C5B | 0.0176 (7) | 0.0148 (7) | 0.0162 (7) | −0.0025 (6) | 0.0015 (6) | −0.0010 (6) |
| O1B | 0.0192 (5) | 0.0124 (5) | 0.0342 (7) | 0.0012 (4) | 0.0110 (5) | 0.0018 (5) |
| O2B | 0.0208 (6) | 0.0119 (5) | 0.0312 (7) | −0.0005 (4) | 0.0094 (5) | 0.0013 (5) |
| O3B | 0.0246 (6) | 0.0194 (6) | 0.0392 (8) | 0.0045 (5) | 0.0157 (6) | 0.0017 (6) |
| O4B | 0.0199 (6) | 0.0128 (5) | 0.0321 (7) | 0.0012 (4) | 0.0082 (5) | −0.0002 (5) |
| C6B | 0.0162 (7) | 0.0137 (7) | 0.0175 (7) | 0.0013 (5) | 0.0024 (6) | −0.0002 (6) |
| C7B | 0.0170 (7) | 0.0113 (7) | 0.0212 (8) | 0.0015 (5) | 0.0054 (6) | 0.0016 (6) |
| C8B | 0.0178 (7) | 0.0147 (7) | 0.0193 (8) | 0.0020 (6) | 0.0016 (6) | 0.0005 (6) |
| Cl1A—C2A | 1.7268 (16) | Cl1B—C2B | 1.7308 (16) |
| N1A—C5A | 1.3472 (19) | N1B—C5B | 1.3484 (19) |
| N1A—C1A | 1.3557 (19) | N1B—C1B | 1.358 (2) |
| N1A—H1NA | 0.93 (2) | N1B—H1NB | 0.92 (2) |
| N2A—C5A | 1.333 (2) | N2B—C5B | 1.331 (2) |
| N2A—H2NA | 0.95 (2) | N2B—H2NB | 0.88 (2) |
| N2A—H3NA | 0.87 (2) | N2B—H3NB | 0.93 (2) |
| C1A—C2A | 1.360 (2) | C1B—C2B | 1.355 (2) |
| C1A—H1A | 0.959 (18) | C1B—H1B | 0.98 (2) |
| C2A—C3A | 1.400 (2) | C2B—C3B | 1.406 (2) |
| C3A—C4A | 1.365 (2) | C3B—C4B | 1.362 (2) |
| C3A—H3A | 0.91 (2) | C3B—H3B | 0.96 (2) |
| C4A—C5A | 1.415 (2) | C4B—C5B | 1.415 (2) |
| C4A—H4A | 0.95 (2) | C4B—H4B | 0.94 (2) |
| O1A—C6A | 1.2481 (18) | O1B—C6B | 1.2491 (18) |
| O2A—C6A | 1.2692 (18) | O2B—C6B | 1.2660 (19) |
| O3A—C8A | 1.2217 (19) | O3B—C8B | 1.2181 (19) |
| O4A—C8A | 1.3150 (18) | O4B—C8B | 1.3153 (19) |
| O4A—H1OA | 0.94 (3) | O4B—H1OB | 0.93 (3) |
| C6A—C7A | 1.517 (2) | C6B—C7B | 1.518 (2) |
| C7A—C8A | 1.508 (2) | C7B—C8B | 1.511 (2) |
| C7A—H7AA | 0.95 (2) | C7B—H7BA | 0.90 (2) |
| C7A—H7AB | 0.97 (2) | C7B—H7BB | 0.95 (2) |
| C5A—N1A—C1A | 123.22 (13) | C5B—N1B—C1B | 122.97 (14) |
| C5A—N1A—H1NA | 116.7 (13) | C5B—N1B—H1NB | 117.6 (13) |
| C1A—N1A—H1NA | 119.8 (13) | C1B—N1B—H1NB | 119.3 (13) |
| C5A—N2A—H2NA | 120.2 (13) | C5B—N2B—H2NB | 118.2 (13) |
| C5A—N2A—H3NA | 117.3 (15) | C5B—N2B—H3NB | 119.7 (14) |
| H2NA—N2A—H3NA | 121.5 (19) | H2NB—N2B—H3NB | 122.1 (19) |
| N1A—C1A—C2A | 119.54 (14) | C2B—C1B—N1B | 119.84 (15) |
| N1A—C1A—H1A | 116.4 (11) | C2B—C1B—H1B | 123.8 (12) |
| C2A—C1A—H1A | 124.1 (11) | N1B—C1B—H1B | 116.4 (12) |
| C1A—C2A—C3A | 119.49 (14) | C1B—C2B—C3B | 119.44 (15) |
| C1A—C2A—Cl1A | 120.43 (12) | C1B—C2B—Cl1B | 120.34 (13) |
| C3A—C2A—Cl1A | 120.07 (12) | C3B—C2B—Cl1B | 120.22 (12) |
| C4A—C3A—C2A | 120.35 (14) | C4B—C3B—C2B | 120.10 (15) |
| C4A—C3A—H3A | 117.8 (12) | C4B—C3B—H3B | 118.8 (12) |
| C2A—C3A—H3A | 121.9 (12) | C2B—C3B—H3B | 121.1 (12) |
| C3A—C4A—C5A | 119.31 (14) | C3B—C4B—C5B | 119.59 (15) |
| C3A—C4A—H4A | 121.2 (12) | C3B—C4B—H4B | 122.9 (12) |
| C5A—C4A—H4A | 119.5 (12) | C5B—C4B—H4B | 117.5 (12) |
| N2A—C5A—N1A | 118.84 (14) | N2B—C5B—N1B | 119.12 (14) |
| N2A—C5A—C4A | 123.08 (14) | N2B—C5B—C4B | 122.84 (15) |
| N1A—C5A—C4A | 118.08 (14) | N1B—C5B—C4B | 118.04 (14) |
| C8A—O4A—H1OA | 106.3 (15) | C8B—O4B—H1OB | 104.0 (16) |
| O1A—C6A—O2A | 124.57 (14) | O1B—C6B—O2B | 124.45 (14) |
| O1A—C6A—C7A | 115.85 (13) | O1B—C6B—C7B | 116.22 (13) |
| O2A—C6A—C7A | 119.57 (13) | O2B—C6B—C7B | 119.33 (13) |
| C8A—C7A—C6A | 118.02 (13) | C8B—C7B—C6B | 118.02 (13) |
| C8A—C7A—H7AA | 106.5 (12) | C8B—C7B—H7BA | 109.3 (13) |
| C6A—C7A—H7AA | 106.5 (12) | C6B—C7B—H7BA | 108.6 (13) |
| C8A—C7A—H7AB | 110.6 (12) | C8B—C7B—H7BB | 106.9 (12) |
| C6A—C7A—H7AB | 107.4 (12) | C6B—C7B—H7BB | 109.9 (12) |
| H7AA—C7A—H7AB | 107.4 (16) | H7BA—C7B—H7BB | 103.1 (18) |
| O3A—C8A—O4A | 121.58 (14) | O3B—C8B—O4B | 121.41 (14) |
| O3A—C8A—C7A | 121.26 (14) | O3B—C8B—C7B | 121.29 (14) |
| O4A—C8A—C7A | 117.15 (13) | O4B—C8B—C7B | 117.29 (13) |
| C5A—N1A—C1A—C2A | −0.6 (2) | C5B—N1B—C1B—C2B | 1.4 (2) |
| N1A—C1A—C2A—C3A | 0.4 (2) | N1B—C1B—C2B—C3B | 0.0 (2) |
| N1A—C1A—C2A—Cl1A | −179.58 (12) | N1B—C1B—C2B—Cl1B | −179.02 (12) |
| C1A—C2A—C3A—C4A | −0.2 (3) | C1B—C2B—C3B—C4B | −0.8 (3) |
| Cl1A—C2A—C3A—C4A | 179.75 (14) | Cl1B—C2B—C3B—C4B | 178.16 (13) |
| C2A—C3A—C4A—C5A | 0.2 (3) | C2B—C3B—C4B—C5B | 0.4 (3) |
| C1A—N1A—C5A—N2A | −179.49 (15) | C1B—N1B—C5B—N2B | 178.66 (15) |
| C1A—N1A—C5A—C4A | 0.6 (2) | C1B—N1B—C5B—C4B | −1.7 (2) |
| C3A—C4A—C5A—N2A | 179.68 (17) | C3B—C4B—C5B—N2B | −179.60 (16) |
| C3A—C4A—C5A—N1A | −0.4 (2) | C3B—C4B—C5B—N1B | 0.8 (2) |
| O1A—C6A—C7A—C8A | 173.93 (14) | O1B—C6B—C7B—C8B | 178.82 (15) |
| O2A—C6A—C7A—C8A | −6.9 (2) | O2B—C6B—C7B—C8B | −0.5 (2) |
| C6A—C7A—C8A—O3A | −173.71 (15) | C6B—C7B—C8B—O3B | −179.34 (16) |
| C6A—C7A—C8A—O4A | 7.8 (2) | C6B—C7B—C8B—O4B | 0.5 (2) |
| H··· | ||||
| N1A—H1NA···O1A | 0.93 (2) | 1.68 (2) | 2.5982 (17) | 171 (2) |
| N2A—H2NA···O2A | 0.95 (2) | 2.01 (2) | 2.9518 (19) | 169.1 (18) |
| N2A—H3NA···O3Bi | 0.87 (2) | 2.07 (2) | 2.9333 (18) | 178 (2) |
| N1B—H1NB···O1B | 0.92 (2) | 1.69 (2) | 2.5980 (17) | 169 (2) |
| N2B—H2NB···O2B | 0.88 (2) | 2.08 (2) | 2.9538 (19) | 175 (2) |
| N2B—H3NB···O3Aii | 0.93 (2) | 2.04 (2) | 2.9598 (19) | 175 (2) |
| O4A—H1OA···O2A | 0.94 (2) | 1.58 (2) | 2.4835 (16) | 158 (2) |
| O4B—H1OB···O2B | 0.93 (3) | 1.57 (3) | 2.4752 (16) | 162 (3) |
| C1A—H1A···O3Biii | 0.960 (18) | 2.458 (18) | 3.374 (2) | 159.6 (14) |
| C1B—H1B···O3Aiii | 0.98 (2) | 2.46 (2) | 3.417 (2) | 166.1 (18) |
| C7A—H7AB···O1Biii | 0.97 (2) | 2.31 (2) | 3.2509 (19) | 162.6 (18) |
| C7B—H7BB···O4Aiv | 0.96 (2) | 2.55 (2) | 3.440 (2) | 155.7 (16) |
| C4A—H4A···O4Bi | 0.95 (2) | 2.32 (2) | 3.264 (2) | 171.6 (18) |
| C4B—H4B···O4Aii | 0.94 (2) | 2.30 (2) | 3.237 (2) | 177.4 (17) |
Hydrogen-bond geometry (Å, °)
| H⋯ | ||||
|---|---|---|---|---|
| N1 | 0.93 (2) | 1.68 (2) | 2.5982 (17) | 171 (2) |
| N2 | 0.95 (2) | 2.01 (2) | 2.9518 (19) | 169.1 (18) |
| N2 | 0.87 (2) | 2.07 (2) | 2.9333 (18) | 178 (2) |
| N1 | 0.92 (2) | 1.69 (2) | 2.5980 (17) | 169 (2) |
| N2 | 0.88 (2) | 2.08 (2) | 2.9538 (19) | 175 (2) |
| N2 | 0.93 (2) | 2.04 (2) | 2.9598 (19) | 175 (2) |
| O4 | 0.94 (2) | 1.58 (2) | 2.4835 (16) | 158 (2) |
| O4 | 0.93 (3) | 1.57 (3) | 2.4752 (16) | 162 (3) |
| C1 | 0.960 (18) | 2.458 (18) | 3.374 (2) | 159.6 (14) |
| C1 | 0.98 (2) | 2.46 (2) | 3.417 (2) | 166.1 (18) |
| C7 | 0.97 (2) | 2.31 (2) | 3.2509 (19) | 162.6 (18) |
| C7 | 0.96 (2) | 2.55 (2) | 3.440 (2) | 155.7 (16) |
| C4 | 0.95 (2) | 2.32 (2) | 3.264 (2) | 171.6 (18) |
| C4 | 0.94 (2) | 2.30 (2) | 3.237 (2) | 177.4 (17) |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .