Search

Three salts, namely 2-amino-4,6-dimethylpyrimidin-1-ium thiobarbiturate trihydrate (I), 2-amino-4,6-dimethoxypyrimidin-1-ium thiobarbiturate dihydrate (II) and 2,4-diamino-5-(3',4',5'-trimethoxybenzyl)pyrimidin-1-ium thiobarbiturate (III), were synthesized and characterized by IR and X-ray diffraction techniques. The primary interaction between the acid and base happens via N-H...O hydrogen bonds in (II) and (III), and via water-mediated N-H...OW and OW-HW...S in (I). The water molecules present in compound (I) form a (H2O)12 water cluster via water-water interactions. In all three compounds (I)-(III), thiobarbiturate anions form self-complementary pairs with a robust R2(2)(8) motif via a pair of N-H...O/N-H...S hydrogen bonds. They mimic the nucleobase base pairs by utilizing the same groups (thymine/uracil uses N3-H and C4=O8 groups during the formation of Watson-Crick and Hoogsteen base pairs with adenine). Compound (I) forms a water-mediated base pair through N-H...OW hydrogen bonds and forms an R4(2)(12) motif. The formation of N-H...S hydrogen bonds, water-mediated base pairs and water-water interactions in these crystal systems offers scope for these systems to be considered as a model in the study of hydration of nucleobases and water-mediated nucleobase base pairs in macromolecules.

In 2,4-diamino-5-(4-chlorophenyl)-6-ethylpyrimidin-1-ium (pyrimethaminium, PMNH) 4-methylbenzoate, C(12)H(14)ClN(4)(+) x C(8)H(7)O(2)(-), (I), pyrimethaminium 3-hydroxypicolinate, C(12)H(14)ClN(4)(+) x C(6)H(4)NO(3)(-), (II), and pyrimethaminium 2,4-dichlorobenzoate, C(12)H(14)ClN(4)(+) x C(7)H(3)Cl(2)O(2)(-), (III), the PMNH cations interact with the carboxylate groups of the corresponding anion via nearly parallel N-H...O hydrogen bonds, forming R(2)(2)(8) ring motifs. A description of the observed arrays of quadruple hydrogen bonds in (I) and (II) in terms of hydrogen donors and acceptors (the DA model), their graph-set motifs and the resulting supramolecular ladder is given. In (III), supramolecular chains along the b axis and helical chains along the a axis are formed via N-H...O hydrogen bonds involving the 2-amino and 4-amino groups of the PMNH cation, respectively. Weak Cl...Cl interactions are also found in (III).

In the crystal structures of 2-amino-4,6-dimethoxypyrimidinium 2,4,6-trinitrophenolate (picrate), C(6)H(10)N(3)O(2)(+).C(6)H(2)N(3)O(7)(-), (I), and 2,4-diamino-5-(4-chlorophenyl)-6-ethylpyrimidin-1-ium (pyrimethaminium or PMN) picrate dimethyl sulfoxide solvate, C(12)H(14)ClN(4)(+).C(6)H(2)N(3)O(7)(-).C(2)H(6)OS, (II), the 2-amino-4,6-dimethoxypyrimidine and PMN cations are protonated at one of the pyrimidine N atoms. The picrate anion interacts with the protonated cations through bifurcated N-H...O hydrogen bonds, forming R(2)(1)(6) and R(1)(2)(6) ring motifs. In (I), Z' = 2. In (II), two inversion-related PMN cations are connected through a pair of N-H...N hydrogen bonds involving the 4-amino group and the uncharged N atom of the pyrimidine ring, forming a cyclic hydrogen-bonded R(2)(2)(8) motif. In addition to the pairing, the O atom of the dimethyl sulfoxide solvent molecule bridges the 2-amino and 4-amino groups on both sides of the paired bases, resulting in a self-complementary ...DADA... array of quadruple hydrogen-bonding patterns.

In the crystal structure of the title compound, C6H10N3+.C7H5O3-, the asymmetric unit contains four crystallographically independent 2-amino-4,6-dimethylpyrimidinium and salicylate ions (Z = 8). In each of these, one of the pyrimidine N atoms is protonated, and the carboxylate group of the salicylate ion interacts with the pyrimidine group through a pair of N-H...O hydrogen bonds, forming an R2(2)(8) motif. The pyrimidine cations also form base pairs via a pair of N-H...N hydrogen bonds (involving the amino group and the unprotonated ring N atom), forming another R2(2)(8) motif. Three such R2(2)(8) motifs, fused together, constitute a closed cyclic aggregate, and the linking of these aggregates, arranged in consecutive layers, can be analysed in terms of off-face stacking interactions.

In the title compounds, namely 2,4-diamino-5-[(3,4,5-trimethoxyphenyl)methyl]pyrimidin-1-ium pyridine-2-carboxylate, C14H19N4O3+.C6H4NO2-, (I), and 2-amino-4,6-dimethylpyrimidin-1-ium pyridine-2-carboxylate hemihydrate, C6H10N3+.C6H4NO2-.0.5H2O, (II), the trimethoprim and 2-amino-4,6-dimethylpyrimidin-1-ium cations are protonated at one of the pyrimidine N atoms. In (I), bifurcated hydrogen bonds are observed between a picolinate O atom, the protonated N atom and the 2-amino group; the graph-set designator is R2(1)(6). The pyrimidine moieties of the trimethoprim cations are centrosymmetrically paired through a pair of N-H...N hydrogen bonds. In addition to the base pairing, one of the picolinate O atoms bridges the 2- and 4-amino groups on either side of the paired bases, resulting in a complementary DADA array. In (II), the carboxylate group of the picolinate anion binds with the protonated pyrimidine N atom and the 2-amino group of the pyrimidine moiety through a pair of N-H...O hydrogen bonds, leading to the common ring motif R2(2)(8). The water molecule, which resides on a twofold rotation axis, bridges the carboxylate group of the picolinate anion via O-H...O hydrogen bonds.

In the title compound, C6H10N3+.HSO4-, the asymmetric unit consists of a hydrogen sulfate anion and a 2-amino-4,6-dimethylpyrimidinium cation. The hydrogen sulfate anions self-assemble through O-H...O hydrogen bonds, forming supramolecular chains along the b axis, while the organic cations form base pairs via N-H...N hydrogen bonds. The aminopyrimidinium cations join to the sulfate anions via a pair of hydrogen bonds donated from the pyrimidinium protonation site and from the exo amine group cis to the protonated site.

In the crystal structure of the title compound, 2C6H9N3 C8H6O4, terephthalic acid has a crystallographic inversion centre and the dimethylpyrimidine molecule shows approximate non-crystallographic mirror and twofold rotation symmetry. The inversion-related pyrimidine molecules form a base pair [R2 2(8) ring motif] via a pair of NH⋯N hydrogen bonds. The carboxyl groups of terephthalic acid link the base pairs via OH⋯N and NH⋯O hydrogen bonds [R2 2(8) motif] to generate a supramolecular ribbon. [ABSTRACT FROM AUTHOR]

In the crystal structure of the title compound, 2,4-diamino-5-(4-chloro­phen­yl)-6-ethyl­pyrimidin-1-ium 3-carb­oxy-4-hydroxy­benzene­sulfonate monohydrate, C12H14ClN4+·C7H5O6S−·H2O, the asymmetric unit contains two crystallographically independent protonated pyrimethamine (PMN) mol­ecules, a pair of sulfosalicylate anions and two water mol­ecules. Both the PMN molecules are protonated at one of the pyrimidine N atoms. The component species inter­act through numerous inter­molecular N—H⋯O, N—H⋯N and O—H⋯O hydrogen bonds and C—H⋯O inter­actions. [ABSTRACT FROM AUTHOR]

In the title compound, 2,4-di­amino-5-(3,4,5-tri­methoxy­benzyl)­pyrimidinium hydrogen malonate, C14H19N4O3+·C3H3O4−, the trimethoprim mol­ecule is protonated at one of the pyrimidine N atoms. The carboxyl­ate group of the hydrogen malonate ion accepts a pair of N—H⋯O hydrogen bonds from an adjacent trimethoprim mol­ecule, which is similar to the carboxyl­ate–trimethoprim cation interaction present in the complex of di­hydro­folate reductase with trimethoprim. An O atom of the carboxyl group forms an intramolecular O—H⋯O hydrogen bond with the carboxyl­ate group, leading to a folded conformation for the hydrogen malonate ion. Each hydrogen malonate ion bridges two di­amino­pyrimidine cations, via N—H⋯O and C—H⋯N hydrogen bonds, leading to a supramolecular ribbon made up of alternating cations and anions. Two such inversion-related ribbons are cross-linked by (amino)N—H⋯O(methoxy) hydrogen bonds, (pyrimidine)C—H⋯O(methoxy) hydrogen bonds and π–π stacking involving the benzene planes. [ABSTRACT FROM AUTHOR]

In the title compound, C12H14ClN4+·C6H4NO2−·H2O, the pyrimethamine molecule is protonated at one of the pyrimidine N atoms. The protonated N atom and 2-amino group of the cation interact with an adjacent nicotinate anion through a pair of N—H...O hydrogen bonds [graph set R22(8)]. The cation, anion and water molecule form a hydrogen-bonded ring motif with graph-set notation R42(8). The crystal structure is further stabilized by N—H...O and O—H...O hydrogen bonds and π–π interactions [centroid–centroid distance = 3.637 (6) Å]. [ABSTRACT FROM AUTHOR]

In the title compounds, namely 2,4-diamino-5-[(3,4,5-trimethoxy­phenyl)methyl]­pyrimidin-1-ium pyridine-2-carboxyl­ate, C14H19N4O3+·C6H4NO2−, (I), and 2-amino-4,6-dimethyl­pyrimidin-1-ium pyridine-2-carboxyl­ate hemihydrate, C6H10N3+·C6H4NO2−·0.5H2O, (II), the trimethoprim and 2-amino-4,6-dimethyl­pyrimidin-1-ium cations are protonated at one of the pyrimidine N atoms. In (I), bifurcated hydrogen bonds are observed between a picolinate O atom, the protonated N atom and the 2-amino group; the graph-set designator is R21(6). The pyrimidine moieties of the trimethoprim cations are centrosymmetrically paired through a pair of N—H⋯N hydrogen bonds. In addition to the base pairing, one of the picolinate O atoms bridges the 2- and 4-amino groups on either side of the paired bases, resulting in a complementary DADA array. In (II), the carboxyl­ate group of the picolinate anion binds with the protonated pyrimidine N atom and the 2-amino group of the pyrimidine moiety through a pair of N—H⋯O hydrogen bonds, leading to the common ring motif R22(8). The water mol­ecule, which resides on a twofold rotation axis, bridges the carboxyl­ate group of the picolinate anion via O—H⋯O hydrogen bonds. [ABSTRACT FROM AUTHOR]

In the title compound [systematic name: 2,4-diamino-5-(3,4,5-trimethoxy­benz­yl)pyrimidinium tetrafluoroborate], C14H19N4O3+·BF4−, the trimethoprim (TMP) mol­ecule is protonated at one of the pyrimidine N atoms. The protonated N atom and 2-amine group of the TMP cation inter­act with the tetrafluoroborate anion through a pair of N—H⋯F hydrogen bonds [graph set R22(8)]. The inversion-related TMP cations are linked through a pair of N—H⋯N hydrogen bonds. The 2-amine group of one TMP cation and the 4-amine group of another cation are bridged by a meth­oxy O atom, via N—H⋯O hydrogen bonds. [ABSTRACT FROM AUTHOR]

Polymorphs of 2-amino-4,6-dimethoxypyrimidine [ADMP (1)], 2,4-diamino-6-methyl-1,3,5-triazine [DAMT ( 2 )], 2,4-diamino-6-phenyl-1,3,5-triazine [DAPT ( 3 )] and a solvate of DAPT with DMF solvent, [DAPT·DMF ( 4 )] were obtained either during a systematic screening using various solvents or by serendipity. These polymorphs and solvates were then characterized using single crystal X-ray diffraction technique and their structural and supramolecular aspects are analyzed. The supramolecular architecture of compounds ( 1 – 4 ) are predominantly hydrogen bonded via N–H⋯N base pairs. These base pairs are formed either between crystallographically independent molecules in the lattice or between symmetry related molecules. The molecular self assembly process involved in 2 , 3 and 4 , facilitates the formation of some base pair motifs with graph-set of R 2 2 (8) and a rare non-complementary base pair motif with graph-set R 2 2 (10). The other interesting supramolecular patterns and non-covalent interactions which lead to the formation of new forms are discussed in detail. [ABSTRACT FROM AUTHOR]

In the title compound, C6H9N3·C7H6O3, the 2-amino-4,6-dimethyl­pyrimidine and 4-hydroxy­benzoic acid mol­ecules link together via N—H⋯O and O—H⋯N hydrogen bonds to form an eight-membered R22(8) ring. Further hydrogen bonds and C—H⋯O inter­actions result in the formation of a three-dimensional network. [ABSTRACT FROM AUTHOR]

In the title cocrystal, C6H9N3O2·C7H7NO2, the 2-amino-4,6-dimethoxy­pyrimidine mol­ecule inter­acts with the carboxyl group of the 4-amino­benzoic acid mol­ecule through N—H⋯O and O—H⋯N hydrogen bonds, forming a cyclic hydrogen-bonded motif [ R22(8)]. This motif further self-organizes through N—H⋯O hydrogen bonds to generate an array of six hydrogen bonds with the rings having the graph-set notation R23(6), R22(8), R42(8), R22(8) and R23(6). The 4-amino­benzoic acid mol­ecules self-assemble via N—H⋯O hydrogen bonds to form a supra­molecular chain along the c axis. [ABSTRACT FROM AUTHOR]