Supramolecular synthesis of some molecular adducts of 4,4′-bipyridine N,N′-dioxide

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

Received (in Durham, UK) 8th May 2008 , Accepted 8th September 2008

First published on 29th October 2008


Abstract

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.


Introduction

Design and synthesis of molecular complexes/adducts employing noncovalent interactions such as hydrogen bonds, which is broadly defined as supramolecular synthesis, aims at creation of exotic functional solids and in this connection, exploration of novel ligands is a continuous process.1 Thus, a variety of ligands of different molecular dimensions and functional properties were utilized for the preparation of numerous supramolecular assemblies of exotic architectures as reported in the recent literature.2 Among those, 4,4′-bipyridine (bpy) is well studied, especially as a spacer molecule, both in organic and organic–inorganic hybrid complexes. It was mainly due to the ability of bpy to form either O–H⋯N only or O–H⋯N/C–H⋯O pair-wise hydrogen bonds and also dative bonds with metal ions in conjunction with carboxyl/carboxylate and many other functional moieties.3

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.


chart, filename = b807853j-c1.gif
Chart 1

Results and discussion

Solid state structure of molecular complex, 1a, of 4,4′-bipyridine N,N′-dioxide, 1 and cyanuric acid (CA)

Co-crystallization of 1 and cyanuric acid, CA, from a methanol solution gave good quality single crystals, 1a, in a 1:2 ratio of the reactants and it was characterized by X-ray diffraction methods. The pertinent crystallographic information is given in Table 1.
Table 1 Crystallographic details of crystal structures of molecular adducts, 1a–1e
  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[1 with combining macron] C2/c P[1 with combining macron] P[1 with combining macron] P21/c
a 8.218(3) 22.129(8) 10.111(2) 7.129(1) 12.926(5)
b 9.299(4) 13.217(5) 10.277(2) 10.253(2) 7.948(3)
c 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
V3 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/eÅ−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).


(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.
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).


(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.
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.

Solid state structure of adduct, 1b, of 4,4′-bipyridine N,N′-dioxide, 1 and trithiocyanuric acid (TCA)

N-oxide, 1 gave co-crystals with TCA as a hydrate and it has been labeled as 1b. Further, the asymmetric unit consists of 1:2 ratio of the reactants, and the important crystallographic information is given in Table 1. The molecular arrangement in two- and three-dimensions in the crystal structure of 1b is shown in 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.
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.

ugraphic, filename = b807853j-u1.gif

Supramolecular assembly in molecular complex, 1c, of 4,4′-bipyridine N,N′-dioxide, 1, and 1,3,5-trihydroxybenzene (phloroglucinol), THB

Co-crystallization of 1 and THB from a methanol solution gave a molecular complex, 1c in a 3:2 ratio of the reactants 1 and THB. Analysis of three-dimensional packing reveals several quite exciting features, especially a pseudorotaxane type network in the form of a host–guest type assembly, as shown in 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.
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.


(a) Molecular recognition between 1 and THB, yielding heteromeric patterns. (b) Homomeric pattern of THB.
Fig. 5 (a) Molecular recognition between 1 and THB, yielding heteromeric patterns. (b) Homomeric pattern of THB.


            Homomeric patterns of N-oxide, 1 in the crystal structure of 1c.
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.

Molecular complex, 1d, of 4,4′-bipyridine N,N′-dioxide, 1 and 1,3-dihydroxybenzene, DHB

N-Oxide, 1 and DHB form co-crystals, 1d, in a 1:1 ratio along with two molecules of water and crystallize in triclinic space group, P[1 with combining macron]. The three-dimensional arrangement of these molecules is indeed quite interesting with a stair-case type structure. A typical arrangement is shown in Fig. 7.
Three-dimensional packing of molecules in the crystal structure of 1d.
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).


Arrangement of molecules within a two-dimensional layer in the crystal structure of 1d.
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.

Supramolecular assembly in molecular complex, 1e, of 4,4′-bipyridine N,N′-dioxide, 1, and 1,2,4,5-benzenetetracarboxylic acid, BTCA

Co-crystallization of 1 and BTCA gave a 1:1 molecular complex, 1e. In this structure (Fig. 9), in two-dimensional arrangement, each molecule of 1 interacts with BTCA forming heteromeric pattern through the formation of O–H⋯O/C–H⋯O hydrogen bonding patterns, H⋯O, 1.60/2.30; 1.49/2.59 Å (O⋯O, 2.53/3.23; 2.48/3.53 Å). But, molecules of 1 did not undergo homomeric aggregation, in the structure of 1e. In contrast, molecules of BTCA show homomeric recognition pattern through well known R22(8) hydrogen bonding pattern, with H⋯O distances of 1.67 and 1.70 Å (O⋯O, 2.63 and 2.65 Å), via the remaining –COOH groups, that did not interact with the molecules of 1.
(a) Two-dimensional arrangement of molecules in the crystal structure of 1e. (b) Stacking of sheets in three-dimensions.
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.

Conclusions

In this study, we have shown the ability of 4,4′-bipyridine N,N′-dioxide to yield different types of supramolecular assemblies from simple stacked sheet structures to pseudorotaxane and stair-case type structures depending upon its interaction with the co-crystallizing agents. Unlike its analogue, bpy, the N-oxide shows preference for the homomeric patterns, although its spacer role is visualized in the structure 1e. Further, observation of the homomeric patterns formed by 1 in the crystal structures, 1a–1d, and also in some of the examples found in the literature, it may be possible to extrapolate it to predict the three-dimensional structure of 1 as a stacked sheets with each sheet as an aggregation of molecular tapes formed by the mutual recognition of the adjacent molecules through C–H⋯O hydrogen bonds. Thus, we strongly believe that this can be a good starting model to determine the three-dimensional structure of 1 by other techniques such as powder X-ray diffraction methods or by computational procedures and we have already initiated process in this direction.

Experimental

Preparation of molecular adducts of the molecular complexes, 1a–1e

All the chemicals used in this study were obtained from commercial suppliers and used as such without any further purification. The solvents employed for the crystallization purpose were of spectroscopy grade of highest available purity. Co-crystals have been prepared by dissolving 4,4′-bipyridine N,N′-dioxide, 1, and cyanuric acid, trithiocyanuric acid, 1,3,5-trihydroxybenzene, 1,3-dihydroxybenzene and 1,2,4,5-benzenetetracarboxylic acid in 1:1 or 1:2 ratio either in CH3OH or H2O as solvent and slowly evaporating the obtained solution. Single crystals were obtained over a period of 48 h in all the cases. In typical preparation, 0.0941 g (0.5 mmol) of 1 and 0.127 g (0.5 mmol) of 1,2,4,5-benzenetetracarboxylic acid were dissolved in 15 mL of CH3OH by gently warming on a water bath. The resultant solution was kept for evaporation at ambient conditions by protecting the conical flask from external mechanical disturbances and within 48 h, colorless and good quality crystals of 1e, were obtained that are suitable for studies by single-crystal X-ray diffraction methods.

Crystal structure determination of 1a–1e

Good quality single crystals of 1a–1e have been chosen by viewing under microscope and glued to a glass fiber using an adhesive to mount on a goniometer of Bruker single crystal X-ray diffractometer equipped with APEX CCD detector. The data collection was smooth in all the cases without any complications and all the crystals were found to be stable throughout data collection period. The intensity data were processed using Bruker suite programmes, SAINT,13 followed by absorption correction by SADABS.14 The structures were solved by using XS and refined by least-square methods using XL.15 All the non-hydrogen atoms were refined by anisotropic methods and the hydrogen atoms were either refined or placed in the calculated positions. All the structural refinements converged to good R-factors as listed in Table 1.

Acknowledgements

We thank Department of Science and Technology (DST) for the financial support and also greatly acknowledge Professor Judith A. K. Howard (Durham, UK) for her generous support to Mayura by awarding scholarship. Also one of us (K. A.) thanks Council of Scientific and Industrial Research (CSIR), for the Research Fellowship..

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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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