Kapildev K.
Arora
,
Mayura S.
Talwelkar
and
V. R.
Pedireddi
*
Solid State & Supramolecular Structural Chemistry Unit, Division of Organic Chemistry, National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, 411008, India. E-mail: vr.pedireddi@ncl.res.in; Fax: +91 20 25892629; Tel: +91 20 25902097
First published on 29th October 2008
Molecular adducts (1a–1e) of 4,4′-bipyridine N,N′-dioxide, 1, respectively with cyanuric acid, trithiocyanuric acid, 1,3,5-trihydroxybenzene (phloroglucinol), 1,3-dihydroxybenzene (resorcinol) and 1,2,4,5-benzenetetracarboxylic acid have been reported. The major interactions observed in the structures 1a–1e are N–H⋯O, N–H⋯S, O–H⋯O and C–H⋯O, in the form of homomeric and heteromeric patterns of the constituents, either as a single or cyclic hydrogen-bonded motifs. While in the adduct 1a, both homomeric and heteromeric units of both the constituents were observed, no heteromeric interactions were observed in 1b and 1c. In addition, in 1b, homomeric aggregation of molecules of 1 occurred in association with water molecules. However, while heteromeric interactions prevail between the constituents in 1d and 1e, only one of the co-crystallizing species gave homomeric interactions (4,4′-bipyridine N,N′-dioxide in 1d; 1,2,4,5-benzenetetracarboxylic acid in 1e). Further, in either type of the patterns, the cyclic motifs are formed as a pair-wise hydrogen bonds comprising of strong and weak hydrogen bonds (N–H⋯O/C–H⋯O or O–H⋯O/C–H⋯O). In three-dimensions, the ensembles of molecules yield planar sheets, ladders and pseudorotaxane type assemblies.
In further exploration and thrust to identify other spacer molecules, compounds that mimic bpy topologically, for example, 1,2-bis(4-pyridyl)ethene and ethane, 1,3-bis(4-pyridyl)propaneetc., evolved as novel ligands for the preparation of the tailor-made supramolecular assemblies of desired architectures and properties.4 Also, in recent times, 4,4′-bipyridine N,N′-dioxide (N-oxide derivative of bpy), 1, has been well considered in the synthesis of coordination assemblies, but corresponding organic supramolecular assemblies are limited.5 Since the N-oxide, 1 is a potential hydrogen bond acceptor to establish interaction with complementary functionalities such as –OH, –COOH, –NH, –CONH2etc., it is rather surprising that 1 was not utilized, so effectively, in the supramolecular synthesis of organic assemblies, as only a few reports are known in the literature.6 Apart from it, the native structure of 1 itself is not known in the literature. Thus, we are interested to elucidate the structure of 1 and also study its application in the molecular recognition and supramolecular synthesis with different organic functional moieties such as –OH, –COOH, which are well known to yield discrete molecular recognition patterns.1c,3b,d In this direction, our attempts to obtain single crystals of suitable quality for structure elucidation of 1 are not successful yet, but co-crystallization experiments of 1 with cyanuric acid, trithiocyanuric acid, 1,3,5-trihydroxybenzene (phloroglucinol), 1,3-dihydroxybenzene (resorcinol) and 1,2,4,5-benzenetetracarboxylic acid, possessing different functional moieties, as shown in Chart 1, gave molecular complexes in the form of single crystals. The structural features of these unusual molecular adducts, unravel by single-crystal X-ray diffraction methods, are described in this article.
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Chart 1 |
1a | 1b | 1c | 1d | 1e | |
---|---|---|---|---|---|
Formula | C10H8N2O2: | C10H8N2O2: | 1.5(C10H8N2O2): | 2(C10H8N2O2): | C10H8N2O2: |
2(C3H3N3O3) | 2(C3H3N3S3):2(H2O) | C6H6O3 | 2(C6H6O2):4(H2O) | C10H6O8 | |
M r | 446.35 | 578.74 | 408.38 | 668.65 | 442.33 |
Crystal morphology | Blocks | Blocks | Blocks | Rectangular blocks | Blocks |
Crystal color | Colorless | Colorless | Pale-yellow | Colorless | Colorless |
Crystal system | Triclinic | Monoclinic | Triclinic | Triclinic | Monoclinic |
Space group |
P![]() |
C2/c |
P![]() |
P![]() |
P21/c |
a/Å | 8.218(3) | 22.129(8) | 10.111(2) | 7.129(1) | 12.926(5) |
b/Å | 9.299(4) | 13.217(5) | 10.277(2) | 10.253(2) | 7.948(3) |
c/Å | 12.168(5) | 8.531(3) | 10.405(2) | 23.220(4) | 19.059(7) |
α/° | 91.93(1) | 90 | 70.61(1) | 82.15(1) | 90 |
β/° | 91.44(1) | 105.82(1) | 84.88(1) | 85.26(1) | 106.54(1) |
γ/° | 108.10(1) | 90 | 61.60(1) | 70.40(1) | 90 |
V/Å3 | 882.7(6) | 2400.6(15) | 902.7(3) | 1582.7(5) | 1877.0(1) |
Z | 2 | 4 | 2 | 2 | 4 |
D c/g cm−3 | 1.679 | 1.601 | 1.502 | 1.403 | 1.565 |
T/K | 298(2) | 298(2) | 298(2) | 298(2) | 273(2) |
λ(Mo-Kα) | 0.71073 | 0.71073 | 0.71073 | 0.71073 | 0.71073 |
μ/mm−1 | 0.138 | 0.612 | 0.112 | 0.109 | 0.128 |
2θ range/° | 46.60 | 46.68 | 56.54 | 46.54 | 56.56 |
Limiting indices | −9 ≤h≤ 9 | −24 ≤h≤ 24 | −13 ≤h≤ 13 | −7 ≤h≤ 7 | −15 ≤h≤ 17 |
−10 ≤k≤ 8 | −14 ≤k≤ 14 | −13 ≤k≤ 13 | −11 ≤k≤ 10 | −10 ≤k≤ 6 | |
−13 ≤l≤ 11 | −9 ≤l≤ 7 | −13 ≤l≤ 13 | −25 ≤l≤ 25 | −25 ≤l≤ 24 | |
F(000) | 460 | 1192 | 426 | 704 | 912 |
No. reflns measured | 3845 | 5055 | 10278 | 6950 | 10778 |
No. unique reflns [R(int)] | 2526 [0.0281] | 1739 [0.0229] | 4062 [0.0418] | 4524 [0.0333] | 4347 [0.0238] |
No. reflns used | 1983 | 1539 | 3342 | 1999 | 3401 |
No. parameters | 345 | 193 | 344 | 465 | 345 |
Reflection | 7.32 | 9.01 | 11.80 | 9.73 | 12.6 |
GOF on F2 | 1.043 | 1.139 | 1.038 | 0.821 | 1.018 |
R 1 [I > 2σ(I)] | 0.0612 | 0.0353 | 0.0558 | 0.0438 | 0.0480 |
wR 2 | 0.1520 | 0.0896 | 0.1571 | 0.0971 | 0.1196 |
Δρmax, min/e−Å−3 | 0.38, −0.44 | 0.44, −0.39 | 0.26, −0.34 | 0.24, −0.23 | 0.249, −0.288 |
Analysis of molecular packing reveals that in the complex 1a, each molecule of 1 establish interaction with two dimers of CA, as shown in Fig. 1, by forming two different pair-wise hydrogen bonding patterns of N–H⋯O (H⋯O, 1.70 and 1.71 Å; N⋯O, 2.69 and 2.68 Å) and C–H⋯O (H⋯O, 2.38 and 2.44 Å; C⋯O, 3.34 and 3.33). Such a recognition pattern gave a three-dimensional structure, as stacked layers, which is shown in Fig. 1(b).
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Fig. 1 (a) Molecular recognition between 1 and CA in the crystal structure of 1a. (b) Three-dimensional arrangement of molecules in the crystal structure of 1a, in the form of stacked layers. |
However, the arrangement of molecules in a typical sheet is quite intriguing. Although 1 and CA established heteromeric pattern, each one in turn form one-dimensional crinkled tapes, through homomeric pattern by holding the adjacent molecules, as shown in Fig. 2. While CA molecules form homomeric patterns through cyclic N–H⋯O hydrogen bonds, with H⋯O distances being in the range, 1.70–2.02 Å (N⋯O, 2.60–2.85 Å), molecules of 1 gave such patterns through a cyclic pattern of C–H⋯O hydrogen bonds and the corresponding H⋯O distances are 2.36 and 2.40 Å, (C⋯O, 3.31 and 3.33 Å). Further, the molecular tapes of 1 and CA are arranged alternatively in two-dimensional sheets. In fact, the homomeric patterns observed for 1 and CA are the most commonly observed arrangement in many of their molecular complexes.7 It is interesting to note that pure crystal structure of CA also is due to the aggregation of such molecular tapes,8 as observed in 1a, held together by single N–H⋯O hydrogen bonds, as shown in Fig. 2(b). However, such an inference could not be established about the arrangement of molecules of 1 as its pure crystal structure is not known. However, since the majority of N-oxide structures possess the homomeric patterns of 1, as shown in Fig. 2(a), following the analogy observed for CA, the pure structure of 1 could be visualized as a combination of such tapes and this may provide means to establish the structure of 1 by other methods, such as powder X-ray diffraction techniques, as it fails to yield single crystals so far, without additional molecules (either solvent of crystallization or co-crystallizing agent).
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Fig. 2 (a) Molecular tapes of 1 and CA through homomeric patterns which are held together by heteromeric in the structure of 1a. (b) Arrangement of molecules in the crystal structure of CA. |
Thus, 1a could be visualized as a representative example for the combination of unity and diversity with the observation of homomeric and heteromeric patterns of both the co-crystallizing species simultaneously. Also, the dual role of N-oxide 1, as a spacer and structure directing, could be established, unlike 4,4′-bipyridine, which often play a role of spacer, except in the recently reported assemblies, wherein it acts as a guest.9 In order to corroborate such features through a large number of molecular complexes of 1, co-crystallization of it with trithiocyanuric acid, TCA, which is an analogue of CA, has been carried out, expecting formation of an iso-structural complex with that of 1a, by which relative competition for homomeric and heteromeric patterns could also be programmed.
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Fig. 3 (a) Stacking of layers comprising of molecules of 1 and TCA in the crystal structure of 1b. (b) Two-dimensional arrangement of molecules showing the molecular tapes of TCA separated by the molecules of 1 and water, which are held together by O–H⋯O hydrogen bonds. |
In 1b, three-dimensional structure is alike in 1a, but through stacked crinkled sheets (Fig. 3), rather than planar sheets. Further, in contrast to the structure of 1a, a heteromeric pattern between the molecules of 1 and TCA is not observed. Instead, the interaction between 1 and TCA is established through water molecules. Thus, TCA forms N–H⋯O hydrogen bonds (H⋯O, 1.66 Å, N⋯O, 2.61 Å) with water molecules, while 1 forms O–H⋯O hydrogen bonds (H⋯O, 1.86 and 1.91 Å with corresponding O⋯O, 2.73 and 2.70 Å), as shown in Fig. 3(b). Such an ensemble ultimately self-assembles, leading to the formation of two-dimensional sheets with tapes of TCA molecules separated by the aggregates of 1 and water. Within each molecular tapes of TCA, the adjacent molecules are held together by N–H⋯S hydrogen bonds with H⋯S distances of 2.52 and 2.54 Å (N⋯S distances of 3.39 and 3.41 Å).
To evaluate, further, the nature of the variable hydrogen-bonding patterns of 1 in the presence of other molecular entities with potential hydrogen bond donor functionalities, co-crystallization of 1 with 1,3,5-trihydroxybenzene (THB) which may be regarded as analogue of CA in its enol form, as shown below, has been carried out.
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Fig. 4 (a) Pseudorotaxane type network in the crystal structure of 1c, with void space being filled by a molecular tape of 1. Schematic representation is shown as inset. (b) A typical pseudorotaxane network with molecules of 1 as rings and molecules of THB as rods. |
Although each THB interacts with three molecules of 1, forming a heteromeric pattern by O–H⋯O hydrogen bonds with H⋯O distances of 1.71, 1.73 and 1.75 Å (O⋯O, 2.63, 2.60, 2.67 Å), as shown in Fig. 5(a), the homomeric patterns formed by both 1 and THB play a crucial role in the formation of ultimate exotic structure in 1c. The homomeric pattern of THB is shown in Fig. 5(b) and the corresponding patterns of 1 are shown in Fig. 6.
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Fig. 5 (a) Molecular recognition between 1 and THB, yielding heteromeric patterns. (b) Homomeric pattern of THB. |
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Fig. 6 Homomeric patterns of N-oxide, 1 in the crystal structure of 1c. |
The molecules of THB were found to be yielding a molecular tape, through homomeric pattern, constituted by C–H⋯O hydrogen bonds (see Fig. 5(b)), which is, in fact, unknown either in its pure structure or in its molecular complexes.10 Further, two molecules of 1 in the asymmetric unit of 1c also form molecular tapes independently. Interestingly, while one of these remains like infinite tapes, the tapes belonging to the second molecule are held together by cyclic C–H⋯O hydrogen bonding patterns constituting layers with void space (Fig. 6). In those cavities the tapes of THB molecules fit like a thread, yielding a pseudorotaxane type structure (Fig. 4(b)). Earlier, in our investigations on 1,10-phenanthroline complexes, we demonstrated the feasibility of such structures entirely engraved by noncovalent interactions.11
Thus, molecular complex, 1c further demonstrates the elegancy of noncovalent synthesis to mimic the ensembles known to exist for decades, often, being synthesized by conventional means. Looking at the tapes formed by THB, it appears that such tapes could be even possibly synthesized by dihydroxybenzene as well, which may possibly also can yield a pseudorotaxane type structure as observed in 1c. Hence, co-crystallization of 1 with 1, 3-dihydroxybenzene (DHB) has been carried out.
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Fig. 7 Three-dimensional packing of molecules in the crystal structure of 1d. |
A detailed analysis of the arrangement reveals that both the symmetry independent molecules of 1, form homomeric patterns independently, as observed in 1a and 1c, yielding molecular tapes through C–H⋯O hydrogen bonds (H⋯O, 2.40 and 2.51; 2.47 and 2.51 Å with corresponding C⋯O, 3.31 and 3.38 Å; 3.40 and 3.40 Å). Infinite tapes corresponding to a particular symmetry are only shown in Fig. 8(a), for the purpose of clarity, while the tapes of the other symmetry independent molecules is shown in the inset of Fig. 8(a). The tapes correspond to both the symmetry independent molecules, are held together by two water molecules through O–H⋯O (H⋯O, 1.67 Å; O⋯O, 2.77 Å) and C–H⋯O (H⋯O, 2.54 Å; C⋯O, 3.31 Å) hydrogen bonds, constituting cavities. The water molecules, in turn, are held together by O–H⋯O hydrogen bond with a H⋯O distance of 1.94 Å (O⋯O, 2.83 Å). In the cavities, two DHB molecules, which are held together by C–H⋯O (H⋯O, 2.90 and 2.91 Å; C⋯O, 3.51 and 3.52 Å) hydrogen bonds are situated. These DHB molecules are further glued to the tapes of 1 by O–H⋯O and C–H⋯O hydrogen bonds. Such adjacent ensembles are further held together, as shown in Fig. 8(a), by water molecules connecting the two molecular tapes corresponding to the same symmetry molecules by O–H⋯O and C–H⋯O hydrogen bonds. A schematic representation of the arrangement is shown in Fig. 8(b).
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Fig. 8 Arrangement of molecules within a two-dimensional layer in the crystal structure of 1d. |
Thus, in complex 1d, only the molecules of 1 aggregated to yield homomeric patterns, while DHB remains as monomers forming interactions with 1 yielding heteromeric patterns.
Taking into account the facile formation of ladders and stair-case type structures by 4,4′-bipyridine (bpy) with –COOH functionality, and in particular, the recent reports of preparation of such architectures by co-crystallizing bpy with 1,2,4,5-benzenetetracarboxylic acid (BTCA),12 further studies have been directed to create supramolecular assembly of 1 and BTCA.
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Fig. 9 (a) Two-dimensional arrangement of molecules in the crystal structure of 1e. (b) Stacking of sheets in three-dimensions. |
Thus, the arrangement ultimately could be visualized as sheets with layers of molecules of BTCA stuffed by the molecules of 1 with appreciable void space. However, in three-dimensional arrangement, the adjacent layers are arranged in such a manner that molecules from the adjacent layers effectively fill the void space; thus, 1e could not yield a channel structure. It is noteworthy to mention that among all the structures studied in this series (1a–1e), molecules of 1 did not undergo homomeric recognition only in the structure of 1e, perhaps, due to the strong interaction between –COOH and N → O moieties, thus exhibiting the ability of 1 also to perform the role of spacer, like its analogue bpy, and suggests the importance of the complementarity between the functional groups undergoing the molecular recognition process.
Footnote |
† Electronic supplementary information (ESI) available: ORTEP diagrams of 1a–1e. Search overview details for Cambridge Structural Database (CSD). CCDC reference numbers 672332–672336. For ESI and crystallographic data in CIF or other electronic format see DOI: 10.1039/b807853j |
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