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Mohana M, Thomas Muthiah P, McMillen CD, Butcher RJ. Supramolecular interactions in salts/cocrystals involving pyrimidine derivatives of sulfonate/carboxylic acid. Acta Crystallogr C Struct Chem 2023; 79:61-67. [PMID: 36739611 DOI: 10.1107/s2053229623000177] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Accepted: 01/06/2023] [Indexed: 01/24/2023] Open
Abstract
The crystal structures of three compounds involving aminopyrimidine derivatives are reported, namely, 5-fluorocytosinium sulfanilate-5-fluorocytosine-4-azaniumylbenzene-1-sulfonate (1/1/1), C4H5FN3O+·C6H6NO3S-·C4H4FN3O·C6H7NO3S, I, 5-fluorocytosine-indole-3-propionic acid (1/1), C4H4FN3O·C11H11NO2, II, and 2,4,6-triaminopyrimidinium 3-nitrobenzoate, C4H8N5+·C7H4NO4-, III, which have been synthesized and characterized by single-crystal X-ray diffraction. In I, there are two 5-fluorocytosine (5FC) molecules (5FC-A and 5FC-B) in the asymmetric unit, with one of the protons disordered between them. 5FC-A and 5FC-B are linked by triple hydrogen bonds, generating two fused rings [two R22(8) ring motifs]. The 5FC-A molecules form a self-complementary base pair [R22(8) ring motif] via a pair of N-H...O hydrogen bonds and the 5FC-B molecules form a similar complementary base pair [R22(8) ring motif]. The combination of these two types of pairing generates a supramolecular ribbon. The 5FC molecules are further hydrogen bonded to the sulfanilate anions and sulfanilic acid molecules via N-H...O hydrogen bonds, generating R44(22) and R66(36) ring motifs. In cocrystal II, two types of base pairs (homosynthons) are observed via a pair of N-H...O/N-H...N hydrogen bonds, generating R22(8) ring motifs. The first type of base pair is formed by the interaction of an N-H group and the carbonyl O atom of 5FC molecules through a couple of N-H...O hydrogen bonds. Another type of base pair is formed via the amino group and a pyrimidine ring N atom of the 5FC molecules through a pair of N-H...N hydrogen bonds. The base pairs (via N-H...N hydrogen bonds) are further bridged by the carboxyl OH group of indole-3-propionic acid and the O atom of 5FC through O-H...O hydrogen bonds on either side of the R22(8) motif. This leads to a DDAA array. In salt III, one of the N atoms of the pyrimidine ring is protonated and interacts with the carboxylate group of the anion through N-H...O hydrogen bonds, leading to the primary ring motif R22(8). Furthermore, the 2,4,6-triaminopyrimidinium (TAP) cations form base pairs [R22(8) homosynthon] via N-H...N hydrogen bonds. A carboxylate O atom of the 3-nitrobenzoate anion bridges two of the amino groups on either side of the paired TAP cations to form another ring [R32(8)]. This leads to the generation of a quadruple DADA array. The crystal structures are further stabilized by π-π stacking (I and III), C-H...π (I and II), C-F...π (I) and C-O...π (II) interactions.
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Affiliation(s)
- Marimuthu Mohana
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Colin D McMillen
- Department of Chemistry, Clemson University, H.L. Hunter Laboratories, Clemson, SC 29634, USA
| | - Ray J Butcher
- Department of Chemistry, Howard University, Washington, DC 20059, USA
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Rajam A, Muthiah PT, Butcher RJ, Jasinski JP, Wikaira J. Design of two series of 1:1 cocrystals involving 4-amino-5-chloro-2,6-dimethylpyrimidine and carboxylic acids. Acta Crystallogr C Struct Chem 2018; 74:1007-1019. [PMID: 30191892 DOI: 10.1107/s2053229618009154] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Accepted: 06/25/2018] [Indexed: 11/10/2022]
Abstract
Two series of a total of ten cocrystals involving 4-amino-5-chloro-2,6-dimethylpyrimidine with various carboxylic acids have been prepared and characterized by single-crystal X-ray diffraction. The pyrimidine unit used for the cocrystals offers two ring N atoms (positions N1 and N3) as proton-accepting sites. Depending upon the site of protonation, two types of cations are possible [Rajam et al. (2017). Acta Cryst. C73, 862-868]. In a parallel arrangement, two series of cocrystals are possible depending upon the hydrogen bonding of the carboxyl group with position N1 or N3. In one series of cocrystals, i.e. 4-amino-5-chloro-2,6-dimethylpyrimidine-3-bromothiophene-2-carboxylic acid (1/1), 1, 4-amino-5-chloro-2,6-dimethylpyrimidine-5-chlorothiophene-2-carboxylic acid (1/1), 2, 4-amino-5-chloro-2,6-dimethylpyrimidine-2,4-dichlorobenzoic acid (1/1), 3, and 4-amino-5-chloro-2,6-dimethylpyrimidine-2-aminobenzoic acid (1/1), 4, the carboxyl hydroxy group (-OH) is hydrogen bonded to position N1 (O-H...N1) of the corresponding pyrimidine unit (single point supramolecular synthon). The inversion-related stacked pyrimidines are doubly bridged by the carboxyl groups via N-H...O and O-H...N hydrogen bonds to form a large cage-like tetrameric unit with an R42(20) graph-set ring motif. These tetrameric units are further connected via base pairing through a pair of N-H...N hydrogen bonds, generating R22(8) motifs (supramolecular homosynthon). In the other series of cocrystals, i.e. 4-amino-5-chloro-2,6-dimethylpyrimidine-5-methylthiophene-2-carboxylic acid (1/1), 5, 4-amino-5-chloro-2,6-dimethylpyrimidine-benzoic acid (1/1), 6, 4-amino-5-chloro-2,6-dimethylpyrimidine-2-methylbenzoic acid (1/1), 7, 4-amino-5-chloro-2,6-dimethylpyrimidine-3-methylbenzoic acid (1/1), 8, 4-amino-5-chloro-2,6-dimethylpyrimidine-4-methylbenzoic acid (1/1), 9, and 4-amino-5-chloro-2,6-dimethylpyrimidine-4-aminobenzoic acid (1/1), 10, the carboxyl group interacts with position N3 and the adjacent 4-amino group of the corresponding pyrimidine ring via O-H...N and N-H...O hydrogen bonds to generate the robust R22(8) supramolecular heterosynthon. These heterosynthons are further connected by N-H...N hydrogen-bond interactions in a linear fashion to form a chain-like arrangement. In cocrystal 1, a Br...Br halogen bond is present, in cocrystals 2 and 3, Cl...Cl halogen bonds are present, and in cocrystals 5, 6 and 7, Cl...O halogen bonds are present. In all of the ten cocrystals, π-π stacking interactions are observed.
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Affiliation(s)
- Ammaiyappan Rajam
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Raymond John Butcher
- Department of Chemistry, Howard University, 525 College Street NW, Washington, DC 20059, USA
| | - Jerry P Jasinski
- Department of Chemistry, Keene State College, 229 Main Street, Keene, NH 03435-2001, USA
| | - Jan Wikaira
- Department of Chemistry, University of Canterbury, Private Bag 4800, Christchurch, New Zealand
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Karthikeyan A, Zeller M, Thomas Muthiah P. Supramolecular architectures in metal(II) (Cd/Zn) halide/nitrate complexes of cytosine/5-fluorocytosine. Acta Crystallogr C Struct Chem 2018; 74:789-796. [PMID: 29973418 DOI: 10.1107/s2053229618007672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Accepted: 05/23/2018] [Indexed: 11/10/2022]
Abstract
Three new metal(II)-cytosine (Cy)/5-fluorocytosine (5FC) complexes, namely bis(4-amino-1,2-dihydropyrimidin-2-one-κN3)diiodidocadmium(II) or bis(cytosine)diiodidocadmium(II), [CdI2(C4H5N3O)2], (I), bis(4-amino-1,2-dihydropyrimidin-2-one-κN3)bis(nitrato-κ2O,O')cadmium(II) or bis(cytosine)bis(nitrato)cadmium(II), [Cd(NO3)2(C4H5N3O)2], (II), and (6-amino-5-fluoro-1,2-dihydropyrimidin-2-one-κN3)aquadibromidozinc(II)-6-amino-5-fluoro-1,2-dihydropyrimidin-2-one (1/1) or (6-amino-5-fluorocytosine)aquadibromidozinc(II)-4-amino-5-fluorocytosine (1/1), [ZnBr2(C4H5FN3O)(H2O)]·C4H5FN3O, (III), have been synthesized and characterized by single-crystal X-ray diffraction. In complex (I), the CdII ion is coordinated to two iodide ions and the endocyclic N atoms of the two cytosine molecules, leading to a distorted tetrahedral geometry. The structure is isotypic with [CdBr2(C4H5N3O)2] [Muthiah et al. (2001). Acta Cryst. E57, m558-m560]. In compound (II), each of the two cytosine molecules coordinates to the CdII ion in a bidentate chelating mode via the endocyclic N atom and the O atom. Each of the two nitrate ions also coordinates in a bidentate chelating mode, forming a bicapped distorted octahedral geometry around cadmium. The typical interligand N-H...O hydrogen bond involving two cytosine molecules is also present. In compound (III), one zinc-coordinated 5FC ligand is cocrystallized with another uncoordinated 5FC molecule. The ZnII atom coordinates to the N(1) atom (systematic numbering) of 5FC, displacing the proton to the N(3) position. This N(3)-H tautomer of 5FC mimics N(3)-protonated cytosine in forming a base pair (via three hydrogen bonds) with 5FC in the lattice, generating two fused R22(8) motifs. The distorted tetrahedral geometry around zinc is completed by two bromide ions and a water molecule. The coordinated and nonccordinated 5FCs are stacked over one another along the a-axis direction, forming the rungs of a ladder motif, whereas Zn-Br bonds and N-H...Br hydrogen bonds form the rails of the ladder. The coordinated water molecules bridge the two types of 5FC molecules via O-H...O hydrogen bonds. The cytosine molecules are coordinated directly to the metal ion in each of the complexes and are hydrogen bonded to the bromide, iodide or nitrate ions. In compound (III), the uncoordinated 5FC molecule pairs with the coordinated 5FC ligand through three hydrogen bonds. The crystal structures are further stabilized by N-H...O, N-H...N, O-H...O, N-H...I and N-H...Br hydrogen bonds, and stacking interactions.
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Affiliation(s)
- Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | - Matthias Zeller
- Department of Chemistry, Purdue University, 560 Oval Drive, West Lafayette, IN 47907, USA
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Swinton Darious R, Thomas Muthiah P, Perdih F. Supramolecular hydrogen-bonding patterns in salts of the antifolate drugs trimethoprim and pyrimethamine. Acta Crystallogr C Struct Chem 2018; 74:487-503. [PMID: 29620034 DOI: 10.1107/s2053229618004072] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2018] [Accepted: 03/09/2018] [Indexed: 11/10/2022]
Abstract
Nine salts of the antifolate drugs trimethoprim and pyrimethamine, namely, trimethoprimium [or 2,4-diamino-5-(3,4,5-trimethoxybenzyl)pyrimidin-1-ium] 2,5-dichlorothiophene-3-carboxylate monohydrate (TMPDCTPC, 1:1), C14H19N4O3+·C5HCl2O2S-, (I), trimethoprimium 3-bromothiophene-2-carboxylate monohydrate, (TMPBTPC, 1:1:1), C14H19N4O3+·C5H2BrO2S-·H2O, (II), trimethoprimium 3-chlorothiophene-2-carboxylate monohydrate (TMPCTPC, 1:1:1), C14H19N4O3+·C5H2ClO2S-·H2O, (III), trimethoprimium 5-methylthiophene-2-carboxylate monohydrate (TMPMTPC, 1:1:1), C14H19N4O3+·C6H5O2S-·H2O, (IV), trimethoprimium anthracene-9-carboxylate sesquihydrate (TMPAC, 2:2:3), C14H19N4O3+·C15H9O2-·1.5H2O, (V), pyrimethaminium [or 2,4-diamino-5-(4-chlorophenyl)-6-ethylpyrimidin-1-ium] 2,5-dichlorothiophene-3-carboxylate (PMNDCTPC, 1:1), C12H14ClN4+·C5HCl2O2S-, (VI), pyrimethaminium 5-bromothiophene-2-carboxylate (PMNBTPC, 1:1), C12H14ClN4+·C5H2BrO2S-, (VII), pyrimethaminium anthracene-9-carboxylate ethanol monosolvate monohydrate (PMNAC, 1:1:1:1), C12H14ClN4+·C15H9O2-·C2H5OH·H2O, (VIII), and bis(pyrimethaminium) naphthalene-1,5-disulfonate (PMNNSA, 2:1), 2C12H14ClN4+·C10H6O6S22-, (IX), have been prepared and characterized by single-crystal X-ray diffraction. In all the crystal structures, the pyrimidine N1 atom is protonated. In salts (I)-(III) and (VI)-(IX), the 2-aminopyrimidinium cation interacts with the corresponding anion via a pair of N-H...O hydrogen bonds, generating the robust R22(8) supramolecular heterosynthon. In salt (IV), instead of forming the R22(8) heterosynthon, the carboxylate group bridges two pyrimidinium cations via N-H...O hydrogen bonds. In salt (V), one of the carboxylate O atoms bridges the N1-H group and a 2-amino H atom of the pyrimidinium cation to form a smaller R21(6) ring instead of the R22(8) ring. In salt (IX), the sulfonate O atoms mimic the role of carboxylate O atoms in forming an R22(8) ring motif. In salts (II)-(IX), the pyrimidinium cation forms base pairs via a pair of N-H...N hydrogen bonds, generating a ring motif [R22(8) homosynthon]. Compounds (II) and (III) are isomorphous. The quadruple DDAA (D = hydrogen-bond donor and A = hydrogen-bond acceptor) array is observed in (I). In salts (II)-(IV) and (VI)-(IX), quadruple DADA arrays are present. In salts (VI) and (VII), both DADA and DDAA arrays co-exist. The crystal structures are further stabilized by π-π stacking interactions [in (I), (V) and (VII)-(IX)], C-H...π interactions [in (IV)-(V) and (VII)-(IX)], C-Br...π interactions [in (II)] and C-Cl...π interactions [in (I), (III) and (VI)]. Cl...O and Cl...Cl halogen-bond interactions are present in (I) and (VI), with distances and angles of 3.0020 (18) and 3.5159 (16) Å, and 165.56 (10) and 154.81 (11)°, respectively.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna, pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Swinton Darious R, Jasmine NJ, Karthikeyan A, Thomas Muthiah P, Perdih F. Supramolecular architectures in cytosinium 6-chloronicotinate monohydrate and 5-bromo-6-methylisocytosinium hydrogen sulfate. Acta Crystallogr C Struct Chem 2018; 74:325-331. [PMID: 29504562 DOI: 10.1107/s2053229618002462] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Accepted: 02/10/2018] [Indexed: 11/10/2022]
Abstract
Aminopyrimidine derivatives are biologically important as they are components of nucleic acids and drugs. The crystals of two new salts, namely cytosinium 6-chloronicotinate monohydrate, C4H6N3O+·C6H3ClNO2-·H2O, (I), and 5-bromo-6-methylisocytosinium hydrogen sulfate (or 2-amino-5-bromo-4-oxo-6-methylpyrimidinium hydrogen sulfate), C5H7BrN3O+·HSO4-, (II), have been prepared and characterized by single-crystal X-ray diffraction. The pyrimidine ring of both compounds is protonated at the imine N atom. In hydrated salt (I), the primary R22(8) ring motif (supramolecular heterosynthon) is formed via a pair of N-H...O(carboxylate) hydrogen bonds. The cations, anions and water molecule are hydrogen bonded through N-H...O, N-H...N, O-H...O and C-H...O hydrogen bonds, forming R22(8), R32(7) and R55(21) motifs, leading to a hydrogen-bonded supramolecular sheet structure. The supramolecular double sheet structure is formed via water-carboxylate O-H...O hydrogen bonds and π-π interactions between the anions and the cations. In salt (II), the hydrogen sulfate ions are linked via O-H...O hydrogen bonds to generate zigzag chains. The aminopyrimidinium cations are embedded between these zigzag chains. Each hydrogen sulfate ion bridges two cations via pairs of N-H...O hydrogen bonds and vice versa, generating two R22(8) ring motifs (supramolecular heterosynthon). The cations also interact with one another via halogen-halogen (Br...Br) and halogen-oxygen (Br...O) interactions.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Swinton Darious R, Thomas Muthiah P, Perdih F. Supra-molecular inter-actions in 2,6-di-amino-4-chloro-pyrimidin-1-ium 5-chloro-salicylate and bis-(2,6-di-amino-4-chloro-pyrimidin-1-ium) naphthalene-1,5-di-sulfonate. Acta Crystallogr E Crystallogr Commun 2018; 74:237-241. [PMID: 29850062 PMCID: PMC5956345 DOI: 10.1107/s2056989018001196] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Accepted: 01/19/2018] [Indexed: 11/28/2022]
Abstract
The crystals of two new salts, 2,6-di-amino-4-chloro-pyrimidin-1-ium 5-chloro-salicylate, C4H6ClN4+·C7H4ClO3-, (I), and bis-(2,6-di-amino-4-chloro-pyrimidin-1-ium) naphthalene-1,5-di-sulfonate, 2C4H6ClN4+·C10H6O6S22-, (II), have been synthesized and characterized by single-crystal X-ray diffraction. In both compounds, the N atom of the pyrimidine group in between the amino substituents is protonated and the pyrimidinium cation forms a pair of N-H⋯O hydrogen bonds with the carboxyl-ate/sulfonate ion, leading to a robust R22(8) motif (supra-molecular heterosynthon). In compound (I), a self-complementary base pairing involving the other pyrimidinium ring nitro-gen atom and one of the amino groups via a pair of N-H⋯N hydrogen bonds [R22(8) homosynthon] is also present. In compound (II), the crystallographic inversion centre coincides with the inversion centre of the naphthalene-1,5-di-sulfonate ion and all the sulfonate O atoms are hydrogen-bond acceptors, generating fused-ring motifs and a quadruple DDAA array. A halogen-bond (Cl⋯Cl) inter-action is present in (I) with a distance and angle of 3.3505 (12) Å and 151.37 (10)°, respectively. In addition, a C-Cl⋯π inter-action and a π-π inter-action in (I) and a π-π inter-action in (II) further stabilize these crystal structures.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna, pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Swinton Darious R, Thomas Muthiah P, Perdih F. Supramolecular architectures in the salt trimethoprimium ferrocene-1-carboxylate and the cocrystal 4-amino-5-chloro-2,6-dimethylpyrimidine-ferrocene-1-carboxylic acid (1/1). Acta Crystallogr C Struct Chem 2017; 73:743-748. [PMID: 28872073 DOI: 10.1107/s2053229617011913] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Accepted: 08/16/2017] [Indexed: 11/11/2022]
Abstract
In the salt trimethoprimium ferrocenecarboxylate [systematic name: 2,4-diamino-5-(3,4,5-trimethoxybenzyl)pyrimidin-1-ium ferrocene-1-carboxylate], (C14H19N4O3)[Fe(C5H5)(C6H4O2)], (I), of the antibacterial compound trimethoprim, the carboxylate group interacts with the protonated aminopyrimidine group of trimethoprim via two N-H...O hydrogen bonds, generating a robust R22(8) ring motif (heterosynthon). However, in the cocrystal 4-amino-5-chloro-2,6-dimethylpyrimidine-ferrocene-1-carboxylic acid (1/1), [Fe(C5H5)(C6H5O2)]·C6H8ClN3, (II), the carboxyl-aminopyrimidine interaction [R22(8) motif] is absent. The carboxyl group interacts with the pyrimidine ring via a single O-H...N hydrogen bond. The pyrimidine rings, however, form base pairs via a pair of N-H...N hydrogen bonds, generating an R22(8) supramolecular homosynthon. In salt (I), the unsubstituted cyclopentadienyl ring is disordered over two positions, with a refined site-occupation ratio of 0.573 (10):0.427 (10). In this study, the two five-membered cyclopentadienyl (Cp) rings of ferrocene are in a staggered conformation, as is evident from the C...Cg...Cg...C pseudo-torsion angles, which are in the range 36.13-37.53° for (I) and 22.58-23.46° for (II). Regarding the Cp ring of the minor component in salt (I), the geometry of the ferrocene ring is in an eclipsed conformation, as is evident from the C...Cg...Cg...C pseudo-torsion angles, which are in the range 79.26-80.94°. Both crystal structures are further stabilized by weak π-π interactions.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Mohana M, Thomas Muthiah P, Butcher RJ. Supramolecular interactions in carboxylate and sulfonate salts of 2,6-diamino-4-chloropyrimidinium. Acta Crystallogr C Struct Chem 2017; 73:536-540. [PMID: 28677605 DOI: 10.1107/s2053229617008798] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2017] [Accepted: 06/13/2017] [Indexed: 11/10/2022] Open
Abstract
Two new salts, namely 2,6-diamino-4-chloropyrimidinium 2-carboxy-3-nitrobenzoate, C4H6ClN4+·C8H4NO6-, (I), and 2,6-diamino-4-chloropyrimidinium p-toluenesulfonate monohydrate, C4H6ClN4+·C7H7O3S-·H2O, (II), have been synthesized and characterized by single-crystal X-ray diffraction. In both crystal structures, the N atom in the 1-position of the pyrimidine ring is protonated. In salt (I), the protonated N atom and the amino group of the pyrimidinium cation interact with the carboxylate group of the anion through N-H...O hydrogen bonds to form a heterosynthon with an R22(8) ring motif. In hydrated salt (II), the presence of the water molecule prevents the formation of the familiar R22(8) ring motif. Instead, an expanded ring [i.e. R32(8)] is formed involving the sulfonate group, the pyrimidinium cation and the water molecule. Both salts form a supramolecular homosynthon [R22(8) ring motif] through N-H...N hydrogen bonds. The molecular structures are further stabilized by π-π stacking, and C=O...π, C-H...O and C-H...Cl interactions.
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Affiliation(s)
- Marimuthu Mohana
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Ray J Butcher
- Department of Chemistry, Howard University, Washington, DC 20059, USA
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Mohana M, Thomas Muthiah P, McMillen CD. Supramolecular architectures in two 1:1 cocrystals of 5-fluorouracil with 5-bromothiophene-2-carboxylic acid and thiophene-2-carboxylic acid. Acta Crystallogr C Struct Chem 2017; 73:481-485. [DOI: 10.1107/s2053229617007550] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2017] [Accepted: 05/21/2017] [Indexed: 11/10/2022]
Abstract
In solid-state engineering, cocrystallization is a strategy actively pursued for pharmaceuticals. Two 1:1 cocrystals of 5-fluorouracil (5FU; systematic name: 5-fluoro-1,3-dihydropyrimidine-2,4-dione), namely 5-fluorouracil–5-bromothiophene-2-carboxylic acid (1/1), C5H3BrO2S·C4H3FN2O2, (I), and 5-fluorouracil–thiophene-2-carboxylic acid (1/1), C4H3FN2O2·C5H4O2S, (II), have been synthesized and characterized by single-crystal X-ray diffraction studies. In both cocrystals, carboxylic acid molecules are linked through an acid–acid R
2
2(8) homosynthon (O—H...O) to form a carboxylic acid dimer and 5FU molecules are connected through two types of base pairs [homosynthon, R
2
2(8) motif] via a pair of N—H...O hydrogen bonds. The crystal structures are further stabilized by C—H...O interactions in (II) and C—Br...O interactions in (I). In both crystal structures, π–π stacking and C—F...π interactions are also observed.
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Mohana M, Thomas Muthiah P, McMillen CD. Crystal structure and hydrogen-bonding patterns in 5-fluoro-cytosinium picrate. Acta Crystallogr E Crystallogr Commun 2017; 73:361-364. [PMID: 28316809 PMCID: PMC5347054 DOI: 10.1107/s205698901700216x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2017] [Accepted: 02/09/2017] [Indexed: 12/04/2022]
Abstract
In the crystal structure of the title compound, 5-fluoro-cytosinium picrate, C4H5FN3O+·C6H2N3O7-, one N heteroatom of the 5-fluoro-cytosine (5FC) ring is protonated. The 5FC ring forms a dihedral angle of 19.97 (11)° with the ring of the picrate (PA-) anion. In the crystal, the 5FC+ cation inter-acts with the PA- anion through three-centre N-H⋯O hydrogen bonds, forming two conjoined rings having R21(6) and R12(6) motifs, and is extended by N-H⋯O hydrogen bonds and C-H⋯O inter-actions into a two-dimensional sheet structure lying parallel to (001). Also present in the crystal structure are weak C-F⋯π inter-actions.
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Affiliation(s)
- Marimuthu Mohana
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamil Nadu, India
| | | | - Colin D. McMillen
- Department of Chemistry, Clemson University, 379 H.L. Hunter Laboratories, Clemson, SC 29634, USA
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Swinton Darious R, Thomas Muthiah P, Perdih F. Supra-molecular hydrogen-bonding patterns in a 1:1 co-crystal of the N(7)-H tautomeric form of N6-benzoyl-adenine with 4-hy-droxy-benzoic acid. Acta Crystallogr E Crystallogr Commun 2017; 73:383-386. [PMID: 28316815 PMCID: PMC5347060 DOI: 10.1107/s2056989017002171] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Accepted: 02/09/2017] [Indexed: 11/23/2022]
Abstract
The asymmetric unit of the title co-crystal, C12H9N5O·C7H6O3, contains one mol-ecule of N6-benzoyl-adenine (BA) and one mol-ecule of 4-hy-droxy-benzoic acid (HBA). The N6-benzoyl-adenine (BA) has an N(7)-H tautomeric form with nonprotonated N-1 and N-3 atoms. This tautomeric form is stabilized by a typical intra-molecular N-H⋯O hydrogen bond between the carbonyl (C=O) group and the N(7)-H hydrogen on the Hoogsteen face of the purine ring, forming a graph-set S(7) ring motif. The primary robust R22(8) ring motif is formed in the Watson-Crick face via N-H⋯O and O-H⋯N hydrogen bonds (involving N1, N6-H and the carboxyl group of HBA). Weak inter-actions, such as, C-H⋯π and π-π are also observed in this crystal structure.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Mohana M, Muthiah PT, McMillen CD. Supramolecular hydrogen-bonding patterns in 1:1 cocrystals of 5-fluorouracil with 4-methylbenzoic acid and 3-nitrobenzoic acid. Acta Crystallogr C Struct Chem 2017; 73:259-263. [DOI: 10.1107/s2053229617001486] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2016] [Accepted: 01/28/2017] [Indexed: 11/10/2022]
Abstract
The design of a pharmaceutical cocrystal is based on the identification of specific hydrogen-bond donor and acceptor groups in active pharmaceutical ingredients (APIs) in order to choose a `complementary interacting' molecule that can act as an efficient coformer. 5-Fluorouracil (5FU) is a pyrimidine derivative with two N—H donors and C=O acceptors and shows a diversity of hydrogen-bonding motifs. Two 1:1 cocrystals of 5-fluorouracil (5FU), namely 5-fluorouracil–4-methylbenzoic acid (5FU–MBA), C4H3FN2O2·C8H8O2, (I), and 5-fluorouracil–3-nitrobenzoic acid (5FU–NBA), C4H3FN2O2·C7H5NO4, (II), have been prepared and characterized by single-crystal X-ray diffraction. In (I), the MBA molecules form carboxylic acid dimers [R
2
2(8) homosynthon]. Similarly, the 5FU molecules form two types of base pair via a pair of N—H...O hydrogen bonds [R
2
2(8) homosynthon]. In (II), 5FU interacts with the carboxylic acid group of NBA via N—H...O and O—H...O hydrogen bonds, generating an R
2
2(8) ring motif (heterosynthon). Furthermore, the 5FU molecules form base pairs [R
2
2(8) homosynthon] via N—H...O hydrogen bonds. Both of the crystal structures are stabilized by C—H...F interactions.
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13
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Prajina O, Thomas Muthiah P, Geiger DK. Supra-molecular inter-actions in the 1:2 co-crystal of 4,4'-bipyridine and 3-chloro-thio-phene-2-carb-oxy-lic acid. Acta Crystallogr E Crystallogr Commun 2016; 72:1362-1365. [PMID: 27746918 PMCID: PMC5050753 DOI: 10.1107/s2056989016013724] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2016] [Accepted: 08/26/2016] [Indexed: 12/04/2022]
Abstract
The asymmetric unit of the title compound, 2C5H3ClO2S·C10H8N2, is comprised of a mol-ecule of 3-chloro-thio-phene-2-carb-oxy-lic acid (3TPC) and half of a mol-ecule of 4,4'-bi-pyridine (BPY). A distinctive O-H⋯N-based synthon is present. Cl⋯Cl and π-π stacking inter-actions further stabilize the crystal structure, forming a two-dimensional network parallel to the bc plane.
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Affiliation(s)
- Olakkandiyil Prajina
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - David K. Geiger
- Department of Chemistry, SUNY-College at Geneseo, Geneseo, New York 14454, USA
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Rajam A, Thomas Muthiah P, Butcher RJ, Zeller M. Crystal structure of 4-amino-5-chloro-2,6-di-methyl-pyrimidinium thio-phene-2,5-di-carboxyl-ate. Acta Crystallogr E Crystallogr Commun 2016; 72:1043-6. [PMID: 27555959 PMCID: PMC4992934 DOI: 10.1107/s2056989016010148] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2016] [Accepted: 06/21/2016] [Indexed: 11/10/2022]
Abstract
In the title salt, C6H9ClN3 (+)·C6H3O4S(-), the cations and anions are linked via O-H⋯O and N-H⋯O hydrogen bonds, forming R 6 (6)(37) ring motifs that are inter-connected with each other, producing sheets. Separate parallel inversion-related sheets are linked through N-H⋯N and π-π stacking inter-actions [centroid-centroid distance = 3.5414 (13) Å], forming double layers parallel to (101). Weak C-H⋯O and C-H⋯S hydrogen bonds, as well as C-H⋯π inter-actions, connect the double layers into a three-dimensional network.
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Affiliation(s)
- Ammaiyappan Rajam
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Ray J. Butcher
- Department of Chemistry, Howard University, 525 College Street NW, Washington, DC 20059, USA
| | - Matthias Zeller
- Department of Chemistry, Youngstown State University, 1 University Plaza, Youngstown, OH 44555, USA
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15
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Swinton Darious R, Thomas Muthiah P, Perdih F. Supra-molecular architecture in a co-crystal of the N(7)-H tautomeric form of N (6)-benzoyl-adenine with adipic acid (1/0.5). Acta Crystallogr E Crystallogr Commun 2016; 72:805-8. [PMID: 27308047 PMCID: PMC4908553 DOI: 10.1107/s2056989016007581] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2016] [Accepted: 05/06/2016] [Indexed: 11/10/2022]
Abstract
The asymmetric unit of the title co-crystal, C12H9N5O·0.5C6H10O4, consists of one mol-ecule of N (6)-benzoyl-adenine (BA) and one half-mol-ecule of adipic acid (AA), the other half being generated by inversion symmetry. The dihedral angle between the adenine and phenyl ring planes is 26.71 (7)°. The N (6)-benzoyl-adenine mol-ecule crystallizes in the N(7)-H tautomeric form with three non-protonated N atoms. This tautomeric form is stabilized by intra-molecular N-H⋯O hydrogen bonding between the carbonyl (C=O) group and the N(7)-H hydrogen atom on the Hoogsteen face of the purine ring, forming an S(7) ring motif. The two carboxyl groups of adipic acid inter-act with the Watson-Crick face of the BA mol-ecules through O-H⋯N and N-H⋯O hydrogen bonds, generating an R 2 (2)(8) ring motif. The latter units are linked by N-H⋯N hydrogen bonds, forming layers parallel to (10-5). A weak C-H⋯O hydrogen bond is also present, linking adipic acid mol-ecules in neighbouring layers, enclosing R (2) 2(10) ring motifs and forming a three-dimensional structure. C=O⋯π and C-H⋯π inter-actions are also present in the structure.
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Affiliation(s)
- Robert Swinton Darious
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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16
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Karthikeyan A, Thomas Muthiah P, Perdih F. Supramolecular architectures in Co(II) and Cu(II) complexes with thiophene-2-carboxylate and 2-amino-4,6-dimethoxypyrimidine ligands. Acta Crystallogr C Struct Chem 2016; 72:442-50. [PMID: 27146575 DOI: 10.1107/s2053229616006148] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Accepted: 04/12/2016] [Indexed: 01/21/2023]
Abstract
The coordination chemistry of mixed-ligand complexes continues to be an active area of research since these compounds have a wide range of applications. Many coordination polymers and metal-organic framworks are emerging as novel functional materials. Aminopyrimidine and its derivatives are flexible ligands with versatile binding and coordination modes which have been proven to be useful in the construction of organic-inorganic hybrid materials and coordination polymers. Thiophenecarboxylic acid, its derivatives and their complexes exhibit pharmacological properties. Cobalt(II) and copper(II) complexes of thiophenecarboxylate have many biological applications, for example, as antifungal and antitumor agents. Two new cobalt(II) and copper(II) complexes incorporating thiophene-2-carboxylate (2-TPC) and 2-amino-4,6-dimethoxypyrimidine (OMP) ligands have been synthesized and characterized by X-ray diffraction studies, namely (2-amino-4,6-dimethoxypyrimidine-κN)aquachlorido(thiophene-2-carboxylato-κO)cobalt(II) monohydrate, [Co(C5H3O2S)Cl(C6H9N3O2)(H2O)]·H2O, (I), and catena-poly[copper(II)-tetrakis(μ-thiophene-2-carboxylato-κ(2)O:O')-copper(II)-(μ-2-amino-4,6-dimethoxypyrimidine-κ(2)N(1):N(3))], [Cu2(C5H3O2S)4(C6H9N3O2)]n, (II). In (I), the Co(II) ion has a distorted tetrahedral coordination environment involving one O atom from a monodentate 2-TPC ligand, one N atom from an OMP ligand, one chloride ligand and one O atom of a water molecule. An additional water molecule is present in the asymmetric unit. The amino group of the coordinated OMP molecule and the coordinated carboxylate O atom of the 2-TPC ligand form an interligand N-H...O hydrogen bond, generating an S(6) ring motif. The pyrimidine molecules also form a base pair [R2(2)(8) motif] via a pair of N-H...N hydrogen bonds. These interactions, together with O-H...O and O-H...Cl hydrogen bonds and π-π stacking interactions, generate a three-dimensional supramolecular architecture. The one-dimensional coordination polymer (II) contains the classical paddle-wheel [Cu2(CH3COO)4(H2O)2] unit, where each carboxylate group of four 2-TPC ligands bridges two square-pyramidally coordinated Cu(II) ions and the apically coordinated OMP ligands bridge the dinuclear copper units. Each dinuclear copper unit has a crystallographic inversion centre, whereas the bridging OMP ligand has crystallographic twofold symmetry. The one-dimensional polymeric chains self-assemble via N-H...O, π-π and C-H...π interactions, generating a three-dimensional supramolecular architecture.
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Affiliation(s)
- Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Vecna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Prajina O, Thomas Muthiah P, Perdih F. Supra-molecular inter-actions in a 1:1 co-crystal of acridine and 3-chloro-thio-phene-2-carb-oxy-lic acid. Acta Crystallogr E Crystallogr Commun 2016; 72:659-62. [PMID: 27308013 PMCID: PMC4908530 DOI: 10.1107/s2056989016005685] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2016] [Accepted: 04/06/2016] [Indexed: 11/30/2022]
Abstract
In the title co-crystal, C5H3ClO2S·C13H9N, the components inter-act with each other via an O-H⋯N hydrogen bond. Acridine-acridine stacking, thio-phene-thio-phene stacking and acridine-thio-phene C-H⋯π inter-actions also occur in the crystal.
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Affiliation(s)
- Olakkandiyil Prajina
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Vecna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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18
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Karthikeyan A, Zeller M, Thomas Muthiah P. Supramolecular hydrogen-bonding patterns in the organic-inorganic hybrid compound bis(4-amino-5-chloro-2,6-dimethylpyrimidinium) tetrathiocyanatozinc(II)-4-amino-5-chloro-2,6-dimethylpyrimidine-water (1/2/2). Acta Crystallogr C Struct Chem 2016; 72:337-40. [PMID: 27045184 DOI: 10.1107/s2053229616004186] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Accepted: 03/11/2016] [Indexed: 11/10/2022]
Abstract
Zinc thiocyanate complexes have been found to be biologically active compounds. Zinc is also an essential element for the normal function of most organisms and is the main constituent in a number of metalloenzyme proteins. Pyrimidine and aminopyrimidine derivatives are biologically very important as they are components of nucleic acids. Thiocyanate ions can bridge metal ions by employing both their N and S atoms for coordination. They can play an important role in assembling different coordination structures and yield an interesting variety of one-, two- and three-dimensional polymeric metal-thiocyanate supramolecular frameworks. The structure of a new zinc thiocyanate-aminopyrimidine organic-inorganic compound, (C6H9ClN3)2[Zn(NCS)4]·2C6H8ClN3·2H2O, is reported. The asymmetric unit consist of half a tetrathiocyanatozinc(II) dianion, an uncoordinated 4-amino-5-chloro-2,6-dimethylpyrimidinium cation, a 4-amino-5-chloro-2,6-dimethylpyrimidine molecule and a water molecule. The Zn(II) atom adopts a distorted tetrahedral coordination geometry and is coordinated by four N atoms from the thiocyanate anions. The Zn(II) atom is located on a special position (twofold axis of symmetry). The pyrimidinium cation and the pyrimidine molecule are not coordinated to the Zn(II) atom, but are hydrogen bonded to the uncoordinated water molecules and the metal-coordinated thiocyanate ligands. The pyrimidine molecules and pyrimidinium cations also form base-pair-like structures with an R2(2)(8) ring motif via N-H...N hydrogen bonds. The crystal structure is further stabilized by intermolecular N-H...O, O-H...S, N-H...S and O-H...N hydrogen bonds, by intramolecular N-H...Cl and C-H...Cl hydrogen bonds, and also by π-π stacking interactions.
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Affiliation(s)
- Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | - Matthias Zeller
- Department of Chemistry, Youngstown State University, 1 University Plaza, Youngstown, OH 44555, USA
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Mohana M, Muthiah PT, Sanjeewa LD, McMillen CD. Hydrogen-bonding patterns in 5-fluoro-cytosine-melamine co-crystal (4/1). Acta Crystallogr E Crystallogr Commun 2016; 72:552-5. [PMID: 27375887 PMCID: PMC4910324 DOI: 10.1107/s205698901600476x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Accepted: 03/21/2016] [Indexed: 11/10/2022]
Abstract
The asymmetric unit of the title compound, 4C4H4FN3O·C3H6N6, comprises of two independent 5-fluoro-cytosine (5FC) mol-ecules (A and B) and one half-mol-ecule of melamine (M). The other half of the melamine mol-ecule is generated by a twofold axis. 5FC mol-ecules A and B are linked through two different homosynthons [R 2 (2)(8) ring motif]; one is formed via a pair of N-H⋯O hydrogen bonds and the second via a pair of N-H⋯N hydrogen bonds. In addition to this pairing, the O atoms of 5FC mol-ecules A and B inter-act with the N2 amino group on both sides of the melamine mol-ecule, forming a DDAA array of quadruple hydrogen bonds and generating a supra-molecular pattern. The 5FC (mol-ecules A and B) and two melamine mol-ecules inter-act via N-H⋯O, N-H⋯N and N-H⋯O, N-H⋯N, C-H⋯F hydrogen bonds forming R 6 (6)(24) and R 4 (4)(15) ring motifs. The crystal structure is further strengthened by C-H⋯F, C-F⋯π and π-π stacking inter-actions.
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Affiliation(s)
- Marimuthu Mohana
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamil Nadu, India
| | | | - Liurukara D. Sanjeewa
- Department of Chemistry, Clemson University, H. L. Hunter Laboratories, Clemson, SC 29634, USA
| | - Colin D. McMillen
- Department of Chemistry, Clemson University, H. L. Hunter Laboratories, Clemson, SC 29634, USA
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Karthikeyan A, Jeeva Jasmine N, Thomas Muthiah P, Perdih F. Supra-molecular hydrogen-bonding patterns in the N(9)-H protonated and N(7)-H tautomeric form of an N(6) -benzoyl-adenine salt: N (6)-benzoyl-adeninium nitrate. Acta Crystallogr E Crystallogr Commun 2016; 72:140-3. [PMID: 26958373 PMCID: PMC4770981 DOI: 10.1107/s2056989015024871] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Accepted: 12/29/2015] [Indexed: 11/10/2022]
Abstract
In the title molecular salt, C12H10N5O(+)·NO3 (-), the adenine unit has an N (9)-protonated N(7)-H tautomeric form with non-protonated N(1) and N(3) atoms. The dihedral angle between the adenine ring system and the phenyl ring is 51.10 (10)°. The typical intra-molecular N(7)-H⋯O hydrogen bond with an S(7) graph-set motif is also present. The benzoyl-adeninium cations also form base pairs through N-H⋯O and C-H⋯N hydrogen bonds involving the Watson-Crick face of the adenine ring and the C and O atoms of the benzoyl ring of an adjacent cation, forming a supra-molecular ribbon with R 2 (2)(9) rings. Benzoyl-adeninum cations are also bridged by one of the oxygen atoms of the nitrate anion, which acts as a double acceptor, forming a pair of N-H⋯O hydrogen bonds to generate a second ribbon motif. These ribbons together with π-π stacking inter-actions between the phenyl ring and the five- and six-membered adenine rings of adjacent mol-ecules generate a three-dimensional supra-molecular architecture.
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Affiliation(s)
- Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620024, Tamilnadu, India
| | | | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Vecna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
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Karthikeyan A, Swinton Darious R, Thomas Muthiah P, Perdih F. Supramolecular hydrogen-bonding patterns in two cocrystals of the N(7)–H tautomeric form ofN6-benzoyladenine:N6-benzoyladenine–3-hydroxypyridinium-2-carboxylate (1/1) andN6-benzoyladenine–DL-tartaric acid (1/1). Acta Crystallogr C Struct Chem 2015; 71:985-90. [DOI: 10.1107/s2053229615018094] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2015] [Accepted: 09/27/2015] [Indexed: 11/11/2022]
Abstract
Two novel cocrystals of the N(7)—H tautomeric form ofN6-benzoyladenine (BA), namelyN6-benzoyladenine–3-hydroxypyridinium-2-carboxylate (3HPA) (1/1), C12H9N5O·C6H5NO3, (I), andN6-benzoyladenine–DL-tartaric acid (TA) (1/1), C12H9N5O·C4H6O6, (II), are reported. In both cocrystals, theN6-benzoyladenine molecule exists as the N(7)—H tautomer, and this tautomeric form is stabilized by intramolecular N—H...O hydrogen bonding between the benzoyl C=O group and the N(7)—H hydrogen on the Hoogsteen site of the purine ring, forming anS(7) motif. The dihedral angle between the adenine and phenyl planes is 0.94 (8)° in (I) and 9.77 (8)° in (II). In (I), the Watson–Crick face of BA (N6—H and N1; purine numbering) interacts with the carboxylate and phenol groups of 3HPA through N—H...O and O—H...N hydrogen bonds, generating a ring-motif heterosynthon [graph setR22(6)]. However, in (II), the Hoogsteen face of BA (benzoyl O atom and N7; purine numbering) interacts with TA (hydroxy and carbonyl O atoms) through N—H...O and O—H...O hydrogen bonds, generating a different heterosynthon [graph setR22(4)]. Both crystal structures are further stabilized by π–π stacking interactions.
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Saranya M, Subashini A, Arunagiri C, Muthiah PT. Crystal structure of 3-acet-oxy-2-methyl-benzoic acid. Acta Crystallogr E Crystallogr Commun 2015; 71:o474. [PMID: 26279915 PMCID: PMC4518910 DOI: 10.1107/s2056989015010865] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/11/2015] [Accepted: 06/05/2015] [Indexed: 11/21/2022]
Abstract
In the title molecule, C10H10O4, the carboxylic acid group is twisted by 11.37 (15)° from the plane of the benzene ring and the acetoxy group is twisted from this plane by 86.60 (17)°. In the crystal, molecules are linked by pairs of O—H⋯O hydrogen bonds, forming inversion dimers with the expected R22(8) graph-set motif.
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Affiliation(s)
- Matheswaran Saranya
- PG & Research Department of Chemistry, Seethalakshmi Ramaswami College, Tiruchirappalli 620 002, Tamil Nadu, India
| | - Annamalai Subashini
- PG & Research Department of Chemistry, Seethalakshmi Ramaswami College, Tiruchirappalli 620 002, Tamil Nadu, India
| | - Chidambaram Arunagiri
- PG & Research Department of Physics, Government Arts College, Ariyalur 621 713, Tamil Nadu, India
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Malathy S, Nirmalram JS, Muthiah PT. Crystal structure of 4-[(5-methyl-isoxazol-3-yl)amino-sulfon-yl]anilinium 3,5-di-nitro-salicylate. Acta Crystallogr E Crystallogr Commun 2015; 71:618-20. [PMID: 26090134 PMCID: PMC4459324 DOI: 10.1107/s2056989015008701] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/02/2015] [Accepted: 05/05/2015] [Indexed: 11/10/2022]
Abstract
The title mol-ecular salt, C10H12N3O3S(+)·C7H3N2O7 (-), protonation occurs at the amino N atom attached to the benzene ring of sulfamethoxazole. In the anion, there is an intra-molecular O-H⋯O hydrogen bond and the cation is linked to the anion by an N-H⋯O hydrogen bond. In the extended structure, the cations and anions are linked via N-H⋯O, N-H⋯N and C-H⋯O hydrogen bonds, forming a three-dimensional framework.
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Affiliation(s)
- Sevaiyan Malathy
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamil Nadu, India
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Gomathi S, Nirmalram JS, Muthiah PT. Hydrogen bonding patterns in salts of derivatives of aminopyrimidine and thiobarbituric acid. Acta Crystallogr B Struct Sci Cryst Eng Mater 2015; 71:144-152. [PMID: 25827367 DOI: 10.1107/s2052520615001729] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2014] [Accepted: 01/27/2015] [Indexed: 06/04/2023]
Abstract
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.
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Affiliation(s)
- Sundaramoorthy Gomathi
- Department of Chemistry, Periyar Maniammai University, Thanjavur 613 403, Tamil Nadu, India
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Saranya M, Subashini A, Arunagiri C, Muthiah PT. Crystal structure of 2-{[(2-chloro-phen-yl)imino]-meth-yl}phenol. Acta Crystallogr E Crystallogr Commun 2015; 71:o48. [PMID: 25705501 PMCID: PMC4331896 DOI: 10.1107/s2056989014026978] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/06/2014] [Accepted: 12/09/2014] [Indexed: 11/10/2022]
Abstract
In the title compound, C13H10ClNO, the dihedral angle between the planes of the aromatic rings is 51.42 (9)° and an intra-molecular O-H⋯N hydrogen bond closes an S(6) ring. The Cl atom and the N atom are syn. No directional inter-actions beyond van der Waals contacts are observed in the crystal.
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Affiliation(s)
- Matheswaran Saranya
- PG & Research Department of Chemistry, Seethalakshmi Ramaswami College, Tiruchirappalli 620 002, Tamil Nadu, India
| | - Annamalai Subashini
- PG & Research Department of Chemistry, Seethalakshmi Ramaswami College, Tiruchirappalli 620 002, Tamil Nadu, India
| | - Chidambaram Arunagiri
- PG & Research Department of Physics, Government Arts College, Ariyalur 621 713, Tamil Nadu, India
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Jennifer SJ, Thomas Muthiah P, Tamilselvi D. Importance of halide involving interactions at Hoogsteen sites in supramolecular architectures of some coordination metal complexes of N(6)-benzyl/furfuryl adenine. Chem Cent J 2014; 8:58. [PMID: 25392712 PMCID: PMC4228066 DOI: 10.1186/s13065-014-0058-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2014] [Accepted: 09/02/2014] [Indexed: 11/10/2022] Open
Abstract
Background Most of the benzyladenine and furfuryladenine derivatives inhibit tumor/cancer cell growth; their toxicity is lesser than the compounds used for the treatment of cancer now-a-days. Many cytokinin derivatives are tested for anticancer activity. Results A series of transition metal complexes containing N6-benzyl/furfuryl aminopurines of formula [Mn(FAH)2(H2O)(Cl3)]2.Cl2(1), [Co(FAH)2(H2O)(Cl3)]2.Cl2(2), [Co(FAH)2(Cl4)]2 .[Co(FAH)2(H3O)(Cl3)].Cl2(3), [Ni(FAH)2(H2O)(Cl3)]2.Cl2. (H2O) (4), [Zn(BAH)Br3] (5) and [Cd2(BAH)2(μ-Br)4Br2]n(6) (where BAH and FAH benzyladeninium and furfuryladeninium cations respectively) have been synthesized and characterized. Crystal structures of (1-4) have similar distorted octahedral coordination geometry, while (5) and (6) have distorted tetrahedral geometry and octahedral geometries respectively. In (1-4) two halide ions and two cytokinin cations (BAH+/FAH+) are laterally coordinated to the metal ion. A water molecule and a halide ion are axially coordinated. But the coordination sphere of (5) consists of N7 coordinated benzyladeninium ion and three halide ions. The complex (6) is a coordination polymer bridged by bromide anions. A common notable feature in (1-4) is the presence of one or more lattice chloride anions. They help in a chain formation by N-H…Cl halide involving hydrogen bonding interactions in between the Hoogsteen site hydrogen. Conclusions The observed crystal structures emphasize the role of the halide ions in developing the supramolecular architectures by halide involving hydrogen bonding interactions. Also most of the reported cobalt cytokinin complexes possess tetrahedral coordination geometry, but some cobalt complexes have distorted octahedral coordination geometry, which are discussed and compared. Supramolecular architectures of some coordination metal complexes of N6-benzyl/furfuryl adenine. ![]()
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Karthikeyan A, Thomas Muthiah P, Perdih F. Crystal structure of 4-amino-5-fluoro-2-oxo-2,3-di-hydro-pyrimidin-1-ium 3-hy-droxy-pyridine-2-carboxyl-ate. Acta Crystallogr Sect E Struct Rep Online 2014; 70:328-30. [PMID: 25484736 PMCID: PMC4257234 DOI: 10.1107/s1600536814021898] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Accepted: 10/04/2014] [Indexed: 11/10/2022]
Abstract
The asymmetric unit of the title salt, C4H5FN3O(+)·C6H4NO3 (-), contains one 4-amino-5-fluoro-2-oxo-2,3-di-hydro-pyrimidin-1-ium (5-fluoro-cytosinium, 5FC) cation and a 3-hy-droxy-picolinate (3HAP) anion. The 4-amino-5-fluoro-2-oxo-2,3-di-hydro-pyrimidine mol-ecule is protonated at one of the pyrimidine N atoms. The typical intra-molecular N-H⋯F and O-H⋯O S(5) and S(6) hydrogen-bond ring motifs are observed in the cations and anions. The protonated N atom and 2-amine group of the 5FC cation inter-act with the 3HPA anion through a pair of nearly parallel N-H⋯O hydrogen bonds, forming a robust R 2 (2)(8) ring motif. The ions are further linked by N-H⋯N, O-H⋯O, N-H⋯O and C-H⋯O hydrogen bonds, generating R 2 (2)(7), R 3 (3)(12) and R 6 (5)(18) ring motifs, respectively, leading to supra-molecular wave-like sheets parallel to (010). The crystal structure is further stabilized by C-H⋯π inter-actions, generating a three-dimensional architecture.
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Affiliation(s)
- Ammasai Karthikeyan
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
| | | | - Franc Perdih
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Vecna pot 113, PO Box 537, SI-1000 Ljubljana, Slovenia
- CO EN-FIST, Trg Osvobodilne fronte 13, SI-1000 Ljubljana, Slovenia
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Jasmine NJ, Muthiah PT, Stanley N. Crystal structure of N'-hy-droxy-pyrimidine-2-carboximidamide. Acta Crystallogr Sect E Struct Rep Online 2014; 70:o1107-8. [PMID: 25484698 PMCID: PMC4257198 DOI: 10.1107/s1600536814020285] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2014] [Accepted: 09/09/2014] [Indexed: 11/10/2022]
Abstract
The title compound, C5H6N4O, is approximately planar, with an angle of 11.04 (15)° between the planes of the pyrimidine ring and the non-H atoms of the carboximidamide unit. The mol-ecule adopts an E configuration about the C=N double bond. In the crystal, adjacent mol-ecules are linked by pairs of N-H⋯O hydrogen bonds, forming inversion dimers with an R 2 (2)(10) ring motif. The dimers are further linked via N-H⋯N and O-H⋯N hydrogen bonds into a sheet structure parallel to the ac plane. The crystal structure also features N-H⋯O and weak C-H⋯O hydrogen bonds and offset π-π stacking inter-actions between adjacent pyrimidine rings [centroid-centroid distance = 3.622 (1) Å].
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Affiliation(s)
| | | | - Nithianantham Stanley
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamil Nadu, India
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Jennifer SJ, Thomas Muthiah P. Syntheses and characterization of two novel tetranuclear lead(II) clusters self-assembled by hydrogen bonded interactions. Chem Cent J 2014; 8:39. [PMID: 24987455 PMCID: PMC4077112 DOI: 10.1186/1752-153x-8-39] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2014] [Accepted: 06/16/2014] [Indexed: 11/22/2022] Open
Abstract
Background The usage of polynuclear metal clusters as secondary building units (SBU’s) in designing of metal organic frameworks (MOF’s) is a field of current interest. These metal clusters have attracted a great deal of attention not only due to their interesting structural topologies but also due to promising physical and chemical properties. In this regard various d,f block (transition and lanthanide) metal clusters have been widely investigated so far. Less attention is paid to construction of heavy p-block Pb(II) clusters. Results Two mixed ligand Pb(II) clusters have been synthesized with bipy(2,2’-Bipyridine), phen(1,10-Phenanthroline), quin (8-Hydroxy quinolinate) and 5-tpc (5-chloro thiophene 2-carboxylate). They have been characterized by elemental analysis, IR, TGA and X-ray crystallography. X-ray diffraction analysis reveals that the complexes [Pb4(quin)4(bipy)2(5-tpc)4] (1) and [Pb4(quin) 4(phen) 2(5-tpc)4] (2) are tetranuclear. The complexes show a slight variation in unit cell parameters, due to the replacement of bipy and the phen ligands. Both complexes contain two types of Pb(II) ions which differ in the coordination geometry around the Pb(II) ion. Conclusions In both complexes the four lead ions Pb1,Pb2, Pb1i and Pb2i lie on the same plane bridged by the 5-tpc anions. Pb1 and Pb2 of both complexes contain a 5-tpc and quin coordinated in a bidentate chelating bridging fashion. In addition the Pb2 and Pb2i ions alone contain a bipy and phen in a bidentate chelating fashion in (1) and (2) respectively. An additional notable feature in both of these complexes are the bridging ability of the quin oxygen which forms a network of coordination bonds in between the four Pb(II) ions. In both complexes the individual units are self-assembled by C-H---Cl/C-H---S hydrogen bonding interactions to generate 2-D aggregates.
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Jennifer SJ, Muthiah PT. Synthesis, crystal structures and supramolecular architectures of square pyramidal Cu(II) complexes containing aromatic chelating N,N’-donor ligands. Chem Cent J 2014. [DOI: 10.1186/1752-153x-8-42] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Jennifer SJ, Muthiah PT. Synthesis, crystal structure and spectroscopic studies of some organic/inorganic hybrid materials containing isostructural monomeric uranyl complexes bridged by bipyridyl typed ligands. Inorganica Chim Acta 2014. [DOI: 10.1016/j.ica.2014.03.014] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Jennifer SJ, Muthiah PT. Mixed-ligand complexes of Ca(II), Ba(II), Mn(II) and Pd(II) with 1,10-phenanthroline and 5-chloro thiophene 2-carboxylic acid ligands: Role of hybrid carboxylate–water clusters and ligands of crystallisation in building up of supramolecular architectures. Inorganica Chim Acta 2014. [DOI: 10.1016/j.ica.2014.01.053] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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Jennifer SJ, Muthiah PT. Design of co-crystals/salts of some Nitrogenous bases and some derivatives of thiophene carboxylic acids through a combination of hydrogen and halogen bonds. Chem Cent J 2014; 8:20. [PMID: 24655545 PMCID: PMC3996520 DOI: 10.1186/1752-153x-8-20] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2013] [Accepted: 03/12/2014] [Indexed: 11/29/2022] Open
Abstract
Background The utility of N-heterocyclic bases to obtain molecular complexes with carboxylic acids is well studied. Depending on the solid state interaction between the N-heterocyclic base and a carboxylic acid a variety of neutral or ionic synthons are observed. Meanwhile, pyridines and pyrimidines have been frequently chosen in the area of crystal engineering for their multipurpose functionality. HT (hetero trimers) and LHT (linear heterotetramers) are the well known synthons that are formed in the presence of pyrimidines and carboxylic acids. Results Fourteen crystals involving various substituted thiophene carboxylic acid derivatives and nitrogenous bases were prepared and characterized by using single crystal X-ray diffraction. The 14 crystals can further be divided into two groups [1a-7a], [8b-14b] based on the nature of the nitrogenous base. Carboxylic acid to pyridine proton transfer has occurred in 3 compounds of each group. In addition to the commonly occurring hydrogen bond based pyridine/carboxylic acid and pyrimidine/carboxylic acid synthons which is the reason for assembly of primary motifs, various other interactions like Cl…Cl, Cl…O, C–H…Cl, C-H…S add additional support in organizing these supermolecules into extended architectures. It is also interesting to note that in all the compounds π-π stacking occurs between the pyrimidine-pyrimidine or pyridine-pyridine or acid-acid moieties rather than acid-pyrimidine/pyridine. Conclusions In all the compounds (1a-14b) either neutral O–H…Npyridyl/pyrimidine or charge-assisted Npyridinium-H…Ocarboxylate hydrogen bonds are present. The HT (hetero trimers) and LHT (linear heterotetramers) are dominant in the crystal structures of the adducts containing N-heterocyclic bases with two proton acceptors (1a-7a). Similar type supramolecular ladders are observed in 5TPC44BIPY (8b), TPC44BIPY (9b), TPC44TMBP (11b). Among the seven compounds [8b-14b] the extended ligands are linear in all except for the TMBP (10b, 11b, 12b). The structure of each compound depends on the dihedral angle between the carboxyl group and the nitrogenous base. All these compounds indicate three main synthons that regularly occur, namely linear heterodimer (HD), heterotrimer (HT) and heterotetramer (LHT).
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Gomathi S, Muthiah PT. Supramolecular architecture of metal-organic frameworks involving dinuclear copper paddle-wheel complexes. Acta Crystallogr C 2013; 69:1498-502. [PMID: 24311499 DOI: 10.1107/s0108270113031429] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2013] [Accepted: 11/17/2013] [Indexed: 11/10/2022] Open
Abstract
The two centrosymmetric dinuclear copper paddle-wheel complexes tetrakis(μ-4-hydroxybenzoato-κ(2)O:O')bis[aquacopper(II)] dimethylformamide disolvate dihydrate, [Cu2(C7H5O3)4(H2O)2]·2C3H7NO·2H2O, (I), and tetrakis(μ-4-methoxybenzoato-κ(2)O:O')bis[(dimethylformamide-κO)copper(II)], [Cu2(C8H7O3)4(C3H7NO)2], (II), crystallize with half of the dinuclear paddle-wheel cage unit in the asymmetric unit and, in addition, complex (I) has one dimethylformamide (DMF) and one water solvent molecule in the asymmetric unit. In both (I) and (II), two Cu(II) ions are bridged by four syn,syn-η(1):η(1):μ carboxylate groups, showing a paddle-wheel cage-type structure with a square-pyramidal coordination geometry. The equatorial positions of (I) and (II) are occupied by the carboxylate groups of 4-hydroxy- and 4-methoxybenzoate ligands, and the axial positions are occupied by aqua and DMF ligands, respectively. The three-dimensional supramolecular metal-organic framework of (I) consists of three different R2(2)(20) and an R4(4)(36) ring motif formed via O-H···O and OW-HW···O hydrogen bonds. Complex (II) simply packs as molecular species.
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Affiliation(s)
- Sundaramoorthy Gomathi
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamil Nadu, India
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Jennifer SJ, Thomas Muthiah P. Supramolecular architectures and structural diversity in a series of lead (II) Chelates involving 5-Chloro/Bromo thiophene-2-carboxylate and N,N'-donor ligands. Chem Cent J 2013; 7:139. [PMID: 23945397 PMCID: PMC3766206 DOI: 10.1186/1752-153x-7-139] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2013] [Accepted: 08/08/2013] [Indexed: 12/02/2022] Open
Abstract
Background Lead is a heavy toxic metal element in biological systems and is one of the major pollutants as a result of its widespread use in industries. In spite of its negative roles the coordination chemistry of Pb(II) complexes is a matter of interest. The N,N’-bidentate aromatic bases such as BPY,4-BPY and PHEN (BPY = 2,2′bipyridine, 4-BPY = 4,4′-dimethyl-2,2′-bipyridine, PHEN = 1,10-Phenanthroline) are widely used to build supramolecular architectures because of their excellent coordinating ability and large conjugated system that can easily form π-π interactions among their aromatic moieties. A series of novel Pb(II) complexes in concert with 5-CTPC, 5-BTPC (5-CTPC = 5-chlorothiophen-2-carboxylate, 5-BTPC = 5-bromothiophen-2-carboxylate) and corresponding bidentate chelating N.N′ ligands have been synthesized and characterized. Results Five new Pb (II) complexes [Pb(BPY)(5-CTPC)2] (1), [Pb(4-BPY)(5-CTPC)2] (2), [Pb2(PHEN)2(5-CTPC)4] (3), [Pb(4-BPY)(5-BTPC)2] (4) and [Pb2(PHEN)2(5-BTPC)2(ACE)2] (5) have been synthesized. Even though in all these complexes the molar ratio of Pb, carboxylate, N,N-chelating ligand are the same (1:2:1), there is a significant structural diversity. These complexes have been characterised and investigated by elemental analysis, IR, 1H-NMR,13C-NMR, TGA, and photoluminescence studies. Single crystal X-ray diffraction studies reveal that complexes (1, 2) and (4) are mononuclear while (3 and 5) are dinuclear in nature which may result from the chelating nature of the ligands, various coordination modes of the carboxylates, and the coordination geometry of the Pb(II) ions. Conclusions The observation of structures 2,4 and 3,5 show the structural changes made just chloro/bromo substituent of the thiophene ring. A detailed packing analysis has been undertaken to delineate the role of valuable non covalent interactions like X…π, H…X, (X = Cl/Br). A quadruple hydrogen bond linking the monomeric units and generating a supramolecular architecture is observed in (1). The metal bite unit comprised of PbN2C2 (i.e. Pb-N-C-C-N-Pb) is the repeating unit in all the five complexes and they have almost same geometrical parameters. This metal bite has been identified as the self assembly unit in complexes.
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Mohan SC, Jenniefer SJ, Muthiah PT, Jothivenkatachalam K. Tetraammine(carbonato-κ 2O, O′)cobalt(III) perchlorate. Acta Crystallogr Sect E Struct Rep Online 2013; 69:i45-i46. [PMID: 24109252 PMCID: PMC3793665 DOI: 10.1107/s1600536813018187] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2013] [Accepted: 07/01/2013] [Indexed: 11/19/2022]
Abstract
In the title complex, [Co(CO3)(NH3)4]ClO4, both the cation and anion lie on a mirror plane. The CoIII ion is coordinated by two NH3 ligands and a chelating carbonato ligand in the equatorial sites and by two NH3 groups in the axial sites, forming a distorted octahedral geometry. In the crystal, N—H⋯O hydrogen bonds connect the anions and cations, forming a three-dimensional network.
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Abstract
In the crystal of the title compound, C6H9N3·C6H8O2, the 2-amino-4,6-di-methyl-pyrimidine and sorbic acid mol-ecules are linked through N-H⋯O and O-H⋯N hydrogen bonds, which generate a cyclic bimolecular heterosynthon with an R 2 (2)(8) graph-set motif. Further, two inversion-related pyrimidine mol-ecules are base-paired via a pair of N-H⋯N hydrogen bonds, forming a cyclic bimolecular homosynthon with a graph-set of R 2 (2)(8). A discrete hetero tetra-meric supra-molecular unit along the b axis is formed by the fusion of two heterosynthons and one homosynthon. An aromatic π-π inter-action [centroid-centroid distance = 3.7945 (16) Å] is observed between these tetra-meric units.
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Affiliation(s)
- Sundaramoorthy Gomathi
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
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Vinosha B, Renuga S, Perumal S, Muthiah PT, Thanigaimani K. Stereoselective Synthesis of Polyfunctionalized Nitrothianes: Enhancement of Stereoselectivity by Microwaves. SYNTHETIC COMMUN 2013. [DOI: 10.1080/00397911.2012.683970] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
| | - Subbiah Renuga
- a Department of Chemistry , Fatima College , Madurai , India
| | - Subbu Perumal
- b School of Chemistry, Madurai Kamaraj University , Madurai , India
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Layek M, Ghosh M, Sain S, Fleck M, Muthiah PT, Jenniefer SJ, Ribas J, Bandyopadhyay D. Synthesis, crystal structure and magnetic properties of nickel(II) and cobalt(III) complexes of a pentadentate Schiff base. J Mol Struct 2013. [DOI: 10.1016/j.molstruc.2012.11.068] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Jenniefer SJ, Muthiah PT. Synthesis, characterization and X-ray structural studies of four copper (II) complexes containing dinuclear paddle wheel structures. Chem Cent J 2013; 7:35. [PMID: 23433679 PMCID: PMC3616956 DOI: 10.1186/1752-153x-7-35] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2013] [Accepted: 02/13/2013] [Indexed: 11/26/2022] Open
Abstract
Background Various dinuclear copper (II) complexes with octahedral geometry have been reported. The majority of these complexes contain N containing aromatic rings as axial ligands. There are also a few cases where the solvent used in the reaction occupies the axial position of the dinuclear copper (II) complex. This may occur by planned synthesis or some times by serendipity. Here we report some four copper (II) complexes containing solvent and or N containing heterocyclic ring as the axial ligand. Results Four compounds, each containing dinuclear Copper (II) units (with the most robust, frequently occurring paddle wheel structures) were synthesized and characterised by single crystal X-ray diffraction and by IR spectroscopy. The compounds 1 & 2 have the general formula Cu2(RCOO) 4(L)2 [(for (1) RCOO= 4-Chloro Benzoate, L= Isopropanol; for 2 RCOO= Benzoate, L= 2-Amino-4,6-dimethyl pyrimidine )] while 3 & 4 have the general formula, Cu2(RCOO) 4(S)2 Cu2(RCOO) 4(L)2 [RCOO=5-Chloro-thiophene-2-carboxylate L= 2-Amino-4,6-dimethyl pyrimidine, for 3 S= ethanol; for 4 S= methanol ]. A wide range of hydrogen bonds (of the O-H…O, N-H…O and N-H…N type) and π-π stacking interactions are present in the crystal structures. Conclusions All compounds contain the dinuclear units, in which two Cu (II) ions are bridged by four syn, syn-η1:η1:μ carboxylates, showing a paddle-wheel cage type with a distorted octahedral geometry. The compounds 1 &2 contain a single dimeric unit while 3 &4 contain two dimeric units. The structures 3 and 4 are very interesting co-crystals of two paddle wheel molecules. Also it is interesting to note that the compounds 3 &4 are isostructural with similar cell parameters. Both the compounds 3 &4 differ in the solvent molecule coordinated to copper in one of the dimeric units. In all the four compounds, each of the copper dimers has an inversion centre. Every copper has a distorted octahedral centre, formed by four oxygen atoms (from different carboxylate) in the equatorial sites. The two axial positions are occupied by copper and the corresponding ligand.
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Palanisamy P, Jenniefer SJ, Muthiah PT, Kumaresan S. Synthesis, characterization, antimicrobial, anticancer, and antituberculosis activity of some new pyrazole, isoxazole, pyrimidine and benzodiazepine derivatives containing thiochromeno and benzothiepino moieties. RSC Adv 2013. [DOI: 10.1039/c3ra42283f] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
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Jenniefer SJ, Muthiah PT, Priyadharshni R. Syntheses, characterization, and supramolecular architectures of two lead(II) complexes of 8-quinolinol. J COORD CHEM 2012. [DOI: 10.1080/00958972.2012.743122] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Sethuraman V, Nithianantham S, Muthiah PT. Self-assembly of hydrogen-bonded supramolecular structures based on hexafluorosilicate anion. J Fluor Chem 2012. [DOI: 10.1016/j.jfluchem.2011.07.027] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Parthasarathy R, Jenniefer SJ, Thomas Muthiah P, Sulochana N. 2,6,6-Trimethylcyclohex-2-enecarboxylic acid. Acta Crystallogr Sect E Struct Rep Online 2012; 68:o536. [PMID: 22347132 PMCID: PMC3275276 DOI: 10.1107/s1600536812002668] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2012] [Accepted: 01/21/2012] [Indexed: 11/10/2022]
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Krishnamoorthy P, Sathyadevi P, Muthiah PT, Dharmaraj N. Nickel and cobalt complexes of benzoic acid (2-hydroxy-benzylidene)-hydrazide ligand: synthesis, structure and comparative in vitro evaluations of biological perspectives. RSC Adv 2012. [DOI: 10.1039/c2ra20597a] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Malathy S, Muthiah PT. 2-Amino-4,6-dimethyl-pyrimidin-1-ium 2,3,5-triiodo-benzoate 2,3,5-triiodo-benzoic acid monosolvate. Acta Crystallogr Sect E Struct Rep Online 2011; 67:o3241-2. [PMID: 22199752 PMCID: PMC3238899 DOI: 10.1107/s160053681104534x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2011] [Accepted: 10/28/2011] [Indexed: 11/16/2022]
Abstract
In the crystal structure of the title compound, C6H10N3+·C7H2I3O2−·C7H3I3O2, two R22(8) motifs are observed. One is generated by the interaction of the 2-amino-4,6-dimethylpyrimidin-1-ium cation with the carboxylate group of the 2,3,5-triiodobenzoate anion via N—H⋯O hydrogen bonds. The other R22(8) motif is formed by the interaction of two centrosymmentrically related pyrimidine moieties through N—H⋯N hydrogen bonds. The two motifs combine to form a linear heterotetrameric unit. Heterotetrameric units are linked by a carboxyl–carboxylate O—H⋯O hydrogen bond (involving the O—H group of neutral 2,3,5-triiodobenzoic acid and an O atom of the anion), forming a supramolecular chain along the a axis. In addition, components are held by weak I⋯O interactions in the range 3.023 (5) to 3.382 (5) Å and I⋯I interactions in the range 3.6327 (7) to 4.0025 (8) Å.
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Affiliation(s)
- Sevaiyan Malathy
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
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Parthasarathy R, Jenniefer SJ, Muthiah PT, Sulochana N. 2,6,6-Trimethylcyclohexene-1-carbaldehyde oxime. Acta Crystallogr Sect E Struct Rep Online 2011; 67:o2732. [PMID: 22065695 PMCID: PMC3201277 DOI: 10.1107/s1600536811037895] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2011] [Accepted: 09/16/2011] [Indexed: 11/10/2022]
Abstract
In the crystal of the title compound C10H17NO, synthesized by the reaction of β-cyclocitral with hydroxylamine hydrochloride, inversion-related molecules are linked by a pair of O—H⋯N hydrogen-bonding interactions between the oxime functionalities, forming R22(6) loops. The molecular conformation is stabilized by intramolecular methyl C—H⋯N interactions. The cyclohexene ring has the typical half-chair conformation.
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Gomathi S, Muthiah PT. 2,4-Diamino-6-methyl-1,3,5-triazin-1-ium tetra-fluoro-borate. Acta Crystallogr Sect E Struct Rep Online 2011; 67:o2762. [PMID: 22058813 PMCID: PMC3201368 DOI: 10.1107/s1600536811038797] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2011] [Accepted: 09/21/2011] [Indexed: 11/23/2022]
Abstract
In the crystal structure of the title salt, C4H8N5+·BF4−, centrosymmetrically related cations undergo base pairing via a pair of N—H⋯N hydrogen bonds, forming an R22(8) ring motif. The cations and anions interact via N—H⋯F hydrogen bonds, generating supramolecular layers parallel to (20), which are in turn linked into a three-dimensional network, forming rings of R66(24) graph-set motif. The crystal structure is further stabilized by π–π stacking interactions [centroid–centroid distance = 3.3361 (12) Å].
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Affiliation(s)
- Sundaramoorthy Gomathi
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
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Gomathi S, Muthiah PT. 2-Amino-4,6-dimeth-oxy-pyrimidin-1-ium p-toluene-sulfonate. Acta Crystallogr Sect E Struct Rep Online 2011; 67:o2679-80. [PMID: 22064770 PMCID: PMC3201388 DOI: 10.1107/s160053681103755x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2011] [Accepted: 09/14/2011] [Indexed: 11/10/2022]
Abstract
In the title salt, C(6)H(10)N(3)O(2) (+)·C(7)H(7)O(3)S(-), the 2-amino-4,6-dimeth-oxy-pyrimidinium cation inter-acts with the sulfonate group of the p-toluene-sulfonate anion via a pair of N-H⋯O hydrogen bonds, forming a cyclic hydrogen-bonded R(2) (2)(8) motif, which in the crystal is linked by further intemolecular N-H⋯O hydrogen bonds, forming supra-molecular chains along the c axis. Furthermore, neighboring chains are inter-linked via weak C-H⋯O hydrogen bonds and C-H⋯π inter-actions, forming layers.
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Affiliation(s)
- Sundaramoorthy Gomathi
- School of Chemistry, Bharathidasan University, Tiruchirappalli 620 024, Tamilnadu, India
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Kalaivani D, Malarvizhi R, Thanigaimani K, Muthiah PT. 2-Meth-oxy-anilinium 3-hy-droxy-2,4,6-trinitro-phenolate. Acta Crystallogr Sect E Struct Rep Online 2011; 67:o686. [PMID: 21522431 PMCID: PMC3052155 DOI: 10.1107/s1600536811005708] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2010] [Accepted: 02/16/2011] [Indexed: 11/10/2022]
Abstract
The cation and anion of the title mol-ecular salt, C(7)H(10)NO(+)·C(6)H(2)N(3)O(8) (-), are linked via an N-H⋯O hydrogen bond. An intra-molecular O-H⋯O hydrogen bond is also found in the anion. In the crystal, the anions self-assemble via O-H⋯O hydrogen bonds, forming a C(9) supra-molecular chain the b axis. Further inter-molecular N-H⋯O inter-actions also occur.
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