Open Access Article

Supramolecular architectures of conformationally controlled 1,3-phenyl-dioxalamic molecular clefts through hydrogen bonding and steric restraints

Juan Saulo González-González a, Francisco Javier Martínez-Martínez a, Ana Lilia Peraza Campos a, Maria de Jesus Rosales-Hoz b, Efrén V. García-Báez c and Itzia I. Padilla-Martínez *c
aFacultad de Ciencias Químicas, Universidad de Colima, Km. 9 Carretera Colima-Coquimatlán, C.P. 28400, Coquimatlán, Colima, Mexico
bDepartamento de Química, CINVESTAV-IPN, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Apartado postal: 14-740, 07000, C.P. 07360, México, D.F., Mexico
cDepartamento de Ciencias Básicas, Unidad Profesional Interdisciplinaria de Biotecnología del Instituto Politécnico Nacional, Av. Acueducto s/n Barrio la Laguna Ticomán, 07340, México, D. F., Mexico

Received 10th March 2011 , Accepted 19th April 2011

First published on 31st May 2011


Abstract

In this contribution the supramolecular architecture of a series of six 1,3-phenyl-dioxalamic molecular clefts is described. The conformation was controlled by the use of Me and OMe group substitution in the phenyl spacer. The structural and conformational study was carried out by X-ray diffraction analysis, DFT calculations at PBEPBE 6-31+G (3df, 3pd) theory level and variable temperature 1H NMR in solution. The C2-Me group exerts a dual influence on the conformation adopting the endo(sc) or exo(ac) conformations in the oxalamic arms, meanwhile the C2-OMe group leads to the adoption of the exo(ap) conformation. DFT study results showed that the exo(ap)–exo(ap) conformation is more stable than the other conformations due to the conjugation that stabilizes the molecule and minimizes the conformational energy. Supramolecular arrays in oxalamate/oxalamide derivatives of 1,3-diaminobenzene, 2-methyl-benzene-1,3-diamine and 2,4,6-trimethyl-benzene-1,3-diamine are directed by self-complementary N–H⋯O hydrogen bonding interactions, whose organization in the crystal depends on the twist of the oxalamic arms, meanwhile in oxalamate/oxalamide derivatives of 5-tert-butyl-2,6-diamineanisol with an exo(ap)–exo(ap) conformation, the supramolecular arrays are directed by π-stacking, dipolar carbonylcarbonyl interactions and C–H⋯O soft contacts. N1,N1′-(1,3-(2,4,6-Trimethyl)-phenyl)-bis-(N2-(2-(2-hydroxyethoxy)ethyl)oxalamide) adopts the form of a supramolecular meso-helix, which is the first example of helical 1,3-phenyl-dioxalamide.


1. Introduction

Non-covalent interactions are recognized to be involved in crystal engineering and molecular recognition.1 They have been increasingly used as a powerful tool for construction of many supramolecular architectures, devices and nanostructured materials.2 Among them, hydrogen bonding is particularly important from the biological point of view, because of its participation in several biological processes such as: the stabilization of the double helix of DNA,3enzyme–substrate interactions,4 recognition among proteins5 and drug–acceptor interactions.6Hydrogen bonding is the most important element in the design of self-assembled organic molecules, sometimes with the participation of other intermolecular forces.7 Inter- and intra-molecular hydrogen bonding has been extensively used in the production of complex organized systems due to the reversibility, specificity, directionality and cooperativity of such interactions.

Oxalamates are composed of an amide and an ester group directly connected to each other. Thus the functionalities N–H, C[double bond, length as m-dash]O and O–R allow them to form one dimensional (1-D) networks through intermolecular hydrogen bonding,8 but they also can form two (2-D) and three dimensional (3-D) networks whose architecture in the solid state will depend on the side-arm substituent.

Oxalamides, which are mono-substituted diamides of oxalic acid, represent construction units with high in-plane hydrogen bonding potential; they are self-complementary and capable of unidirectional hydrogen bonding. In many cases, their self-assembly produces robust one-dimensional hydrogen-bonded chains, although, depending on the substitution and presence of additional hydrogen bonding units, a variety of more complex structures might be observed. The NH and amide carbonyl are usually in a trans disposition as also are amide and ester carbonyls or both carbonyl amides, in oxalamate and oxalamide, respectively, thus the most common conformation is trans–anti (t,a) in oxalamates and transantitrans (t,a,t) in oxalamides.9

ugraphic, filename = c1ce05302g-u1.gif

1,3-Phenyl-dioxalamates and 1,3-phenyl-dioxalamides are good candidates to be used in molecular recognition processes, because of the cavity formed in between the two side arms with a bent conformation and the open possibility of π-stacking between the phenyl spacer. The relative disposition of both arms in relation to the 2-substituted phenyl spacer and among them gives rise to several conformations.

In this contribution the molecular and supramolecular structure of 1,3-phenyl-dioxalamate 1 is revisited, and those corresponding to three 2-substituted 1,3-phenyl-dioxalamates 2–4 are reported. This series of compounds was synthesized starting from 1,3-diaminobenzene C-2 substituted with Me or OMe groups. The presence of these groups bisecting the central phenyl ring was used to tilt the oxalyl side arms out of the plane and thus favor intermolecular hydrogen bonding. In order to test the utility of the hydroxyl group to increase the self-assembling capabilities of the oxalamide moiety into predictable structural patterns, oxalamides with side-arm substituents derived from ethanolamine 5–7 were prepared. Furthermore, the molecular and supramolecular 1,3-phenyl-dioxalamides 5–7 are also analyzed and compared with their parent dioxalamates 2–4. To the best of our knowledge there are recent reports on the topological control10a of their dimensionality in the solid state, but there are no reports about the use of steric effects to control the conformation and so the hydrogen bond directed self-assembly in the solid state of these molecules. Results were supported by DFT calculations and 1H NMR measurements.

ugraphic, filename = c1ce05302g-u2.gif

2. Results

The relative disposition of the carbonyl group of the phenylamide moiety (PhNHCO) regarding the 2-substituent in the phenyl ring, as a plane of reference, gives rise to several conformers: antiperiplanar (ap), anticlinal (ac), synclinal (sc) and synperiplanar (sp), in agreement with the torsion angle C2–C1–N7–C8 values of ±180–150°, ±150–90°, ±90–30° and ±30–0°, respectively. In Fig. 1 are shown the Newman projections along the C1–N7 bond.11
Newman projections of conformers derived from the C2–C1–N7–C8 torsion angle, viewed along the C1–N7 bond.
Fig. 1 Newman projections of conformers derived from the C2–C1–N7–C8 torsion angle, viewed along the C1–N7 bond.

In both syn-conformers, the PhNHCO carbonyl is pointing towards the 2-substituent, thus endo positioned with regard to the cavity, whereas the anti-conformers are exo positioned. Taking into account the two arms, ten combinations are possible: three exoexo (apap, acac, apac), four exoendo (apsc, apsp, acsc, acsp) and three endoendo (scsc, scsp, spsp).

There are two reported polymorphs of diethyl 1,3-phenyl-dioxalamate 110b and 1′.10c In the conformation exhibited by polymorph 1, both amide carbonyls are located pointing endo to the cavity and syn (scsp) positioned regarding to the phenyl ring with C2–C1–N7–C8 and C1–N7–C8–O8 torsion angles of 37.0(3)° and −4.1(3)°, respectively. This conformation allows a full intramolecular hydrogen bonding scheme combining one O⋯H2⋯O three centred and two NH⋯O hydrogen bonding interactions, respectively. Thus a set of four adjacent intramolecular rings are formed, which are described by the graph set notation12 as [S(5)S(6)S(5)S(6)] motif. Meanwhile in 1′, the torsion angles C6–C1–N7–C8 and C1–N7–C8–O8 take values of 32.6(5)° and 179.3(3)°, respectively, in agreement with an exo(ac)–exo(ac) conformation of both oxalamate arms. This conformation favors the formation of two sets of intramolecular six and five membered hydrogen bond motifs [S(6)S(5)]. A common feature of conformers 1 and 1′ is the twist of both oxalamate side arms, one of them tilted up and the other tilted down with regard to the mean plane of the phenyl ring. The out-of-plane conformation is characteristic of disubstituted ethylo- and p-phenyl-bis-oxalamates,13 in contrast with the reported planar conformation of monosubstituted ethyl N-phenyl oxalamate.14

ugraphic, filename = c1ce05302g-u3.gif

2.1 Intramolecular hydrogen bonding and molecular structure

Oxalamates 2–4 in the solid state. The molecular structures and intramolecular hydrogen bonding schemes of compounds 2–4 are shown in Fig. 2 and a summary of bond lengths and angles is listed in Table 1. The OC–CO distances are similar to the reported structure of diethyl 1,3-phenyl-dioxalamate 1 in agreement with OC–CO single bond and anti disposition between amide and ester carbonyls in both oxalamate arms. In compounds 2–4, the amide proton is located trans to the amide carbonyl as in most secondary amides. The amide and ester carbonyls are anti to each other with similar O8[double bond, length as m-dash]C8–C9[double bond, length as m-dash]O9 and O18[double bond, length as m-dash]C18–C19[double bond, length as m-dash]O19 torsion angle values between ±165 and ±178°. The N7–C8–C9–O10 and N17–C18–C19–O20 torsion angle values are near to 180°, in close agreement with those values reported for diethyl phenyl-dioxalamates.10
Table 1 Selected bond lengths (Å) and angles (deg) of compounds 2–7a
Compounds 2 3 4 5 6 7
a X = O in 2–4 and X = N in 5–7.
Atoms Bond lengths/Å
C1–N7 1.431(3) 1.417(5) 1.402(4) 1.440(6) 1.441(3) 1.409(3)
C3–N17 1.433(3) 1.429(5) 1.413(4) 1.415(6)   1.397(3)
N7–C8 1.335(3) 1.344(5) 1.345(4) 1.324(6) 1.317(4) 1.344(3)
N10–C9       1.317(6) 1.313(5) 1.319(3)
N17–C18 1.335(3) 1.331(5) 1.342(4) 1.338(6)   1.353(3)
N20–C19       1.337(6)   1.330(4)
C8–C9 1.535(3) 1.532(6) 1.529(4) 1.505(7) 1.525(5) 1.538(4)
C18–C19 1.543(3) 1.524(6) 1.543(5) 1.517(6)   1.527(4)
Atoms Torsion angles/°
C2–C1–N7–C8 64.4(3) −60.4(5) 179.5(3) −126.5(5) −72.4(4) −176.1(3)
C2–C3–N17–C18 67.4(3) −103.5(4) −178.4(3) −144.5(4)   −177.6(3)
C6–C1–N7–C8 −117.0(2) 123.4(4) 0.3(5) 55.4(7) 108.0(3) −4.9(5)
C1–N7–C8–O8 −0.2(4) −9.5(6) −3.6(5) −1.2(9) 10.3(6) −2.3(5)
C4–C3–N17–C18 −113.7(2) 76.5(4) 0.8(5) 38.5(7)   −1.6(5)
C3–N17–C18–O18 −0.8(3) −2.1(6) −4.5(5) 1.8(8)   2.5(5)
O8–C8–C9–O9 −167.9(2) 165.0(4) −176.1(3) −169.1(5) 179.1(3) 179.7(3)
O18–C18–C19–O19 −177.3(2) 168.6(4) −177.4(4) −179.6(4)   178.0(3)
N7–C8–C9–X10 −169.14(18) 170.0(3) −178.6(3) −165.1(5) 176.3(3) −179.7(2)
N17–C18–C19–X20 179.97(18) 169.9(3) −178.1(3) −177.2(4)   177.7(2)
N10–C11–C12–O13         −177.3(3) −59.5(3)
N20–C21–C22–O23           66.2(3)
O13–C14–C15–O16         69.1(4)  



Molecular structure at 30% probability level and intramolecular interactions of dioxalamates 2–4.
Fig. 2 Molecular structure at 30% probability level and intramolecular interactions of dioxalamates 2–4.

The introduction of a CH3 group in the C-2 position, compound 2, increases the twisting out of the ethyl oxalamate arms from 37.0(3)° in polymorph 1 to 64.4(3) and 67.4(3)° (C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles, respectively), as reported for diamides derived from 2-methyl-benzene-1,3-diamine.15 Thus both oxalamate arms are toward one another, one above the plane of the phenyl ring and the other below this plane with both amide carbonyls in synclinal (sc) disposition in relation to the phenyl ring, but even endo to the cavity. This conformation allows the formation of a set of four adjacent intramolecular rings [S(5)S(7)S(7)S(5)] with the participation of NH and C2–CH3 hydrogen atoms as donors and both carbonyls as acceptors: N7–H7⋯O9, N17–H17⋯O19, C23–H23A⋯O18 and C23–H23B⋯O18, Fig. 2(a). It is worthy to note that, in this compound and in related diamides, the methyl group is pointing towards the amide carbonyl thus favoring the S(7) ring, whereas in monoamides derived from o-tolylamine16 it is always in the opposite direction. In spite of the steric requirements of the C2–CH3 group, this conformer strongly resembles that of polymorph 1, where the central S(6) intramolecular hydrogen bonded rings are substituted by larger S(7) ring motifs. In Table 2 the geometric parameters associated with intramolecular hydrogen bonding of compounds 2–4 are summarized. The interaction lengths are shorter than the sum of the van der Waals radii of the atoms involved (H = 1.20, C = 1.70, N = 1.55, O = 1.50 Å).17

Table 2 Geometric parameters of intramolecular interactions in compounds 2–7a
Comp. D–H⋯A D–H/Å H⋯A/Å D⋯A/Å D–H⋯A/° HB motif
a Σ∠N7H7/° = 359 (a), 360 (c); Σ∠N17H17/° = 360 (b), 359 (d).
2 N7–H7⋯O9 0.86 2.31 2.696(3) 107 S(5)
N17–H17⋯O19 0.86 2.31 2.693(2) 107 S(5)
C23–H23A⋯O18 0.96 2.44 3.156(3) 131 S(7)
C23–H23B⋯O8 0.96 2.58 3.115(3) 115 S(7)
3 N7–H7⋯O9 0.86 2.39 2.727(4) 104 S(5)
N17–H17⋯O19 0.86 2.37 2.728(4) 105 S(5)
4 N7–H7a⋯O9 0.86 2.20 2.640(4) 111 S(5)
N7–H7a⋯O23 0.86 2.27 2.694(3) 110 S(5)
N17–H17b⋯O19 0.86 2.25 2.678(4) 111 S(5)
N17–H17b⋯O23 0.86 2.25 2.703(4) 110 S(5)
C4–H4⋯O18 0.93 2.34 2.940(4) 122 S(6)
C6–H6⋯O8 0.93 2.37 2.967(4) 121 S(6)
5 N7–H7⋯O9 0.86 2.26 2.659(5) 109 S(5)
N10–H10⋯O8 0.86 2.39 2.749(5) 106 S(5)
N17–H17⋯O19 0.86 2.25 2.670(5) 110 S(5)
N20–H20⋯O18 0.86 2.36 2.727(5) 106 S(5)
C4–H4⋯O18 0.93 2.51 2.977(6) 111 S(6)
6 N7–H7⋯O9 0.86 2.29 2.675(3) 107 S(5)
N10–H10⋯O8 0.86 2.32 2.701(4) 107 S(5)
7 N7–H7⋯O9c 0.86 2.20 2.647(3) 112 S(5)
N7–H7⋯O24c 0.86 2.27 2.692(3) 110 S(5)
N10–H10⋯O8 0.86 2.33 2.714(3) 107 S(5)
N17–H17⋯O19d 0.86 2.24 2.665(3) 110 S(5)
N17–H17⋯O24d 0.86 2.30 2.704(3) 109 S(5)
N20–H20⋯O18 0.86 2.32 2.693(3) 106 S(5)
C4–H4⋯O18 0.93 2.30 2.912(3) 123 S(6)
C6–H6⋯O8 0.93 2.38 2.974(3) 121 S(6)


Further increasing the steric restraints with CH3 substituent groups in C2, C4 and C6, compound 3, the oxalamate arms become twisted by −60.4(5)° and −103.5(4)° for C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles, respectively. This result is in agreement with the mean value of ca. 70° reported for 2,4,6-trimethyl-benzene-1,3-diamine.18 The oxalamate arms are also up and down, adopting a synclinal (sc) and anticlinal (ac) disposition, in relation to the mean plane of the phenyl ring, and endoexo positioned to the cavity. Intramolecular hydrogen bonding is reduced to only two S(5) ring motifs, formed by N7–H7⋯O9 and N17–H17⋯O19 interactions, Fig. 2(b).

In compound 4, the bulkiest OCH3 substituent in C2 leads to the full rotation of both oxalamate side arms to locate them almost in the same plane of the phenyl ring, C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles of 179.5(3)° and −178.4(3)°, as found in diamides derived from 2-methoxy-5-methyl-benzene-1,3-diamine,19 both adopting an antiperiplanar (ap) disposition, in relation to the mean plane of the phenyl ring and exoexo positioned to the cavity. In this molecule the t-Bu substituent is far away from the cavity, thus the steric effect is mainly exerted by the methoxy group. The OMe group is almost perpendicular to the phenyl ring (C1–C2–O23–C24 = 91.3(3)°) leading the oxygen atom in the same plane. This conformation is probably assisted by cooperative intramolecular hydrogen bonding.20 The amide hydrogen atoms are involved in a three-centred hydrogen bonding with both O-atoms from the ester carbonyl and methoxy groups (O9⋯H7⋯O23 and O19⋯H17⋯O23), an important feature of this interaction is that the sum of angles around the amide H-atom (Σ∠NH) is close to 360°.21 In the opposite side, the amide carbonyls are also interacting with the aromatic hydrogen atoms H4 and H6 (C4–H4⋯O18 and C6–H6⋯O8). The full system is composed of six adjacent rings described by the graph set notation as an [S(5)S(6)S(5)S(5)S(6)S(5)] ring system, Fig. 2(c).

Oxalamides 5–7 in the solid state. Dioxalamides 5–7 are symmetrical but each arm is composed of two different amide groups, one of them directly linked to the phenyl ring (PhNHCO) and the other to an ethylamine residue (RNHCO). The molecular structures and intramolecular hydrogen bonding schemes of compounds 5–7 are shown in Fig. 3 and a summary of bond lengths and angles is listed in Table 1. The OC–CO distances are similar to the reported structures of phenyl oxalamides22 in agreement with OC–CO single bond. As in most of secondary oxalamides, both amide groups are anti to each other with N7–C8–C9–N10 and N17–C18–C19–N20 torsion angles between ±165 and ±180°.
Molecular structure at 30% probability level and intramolecular interactions of dioxalamides 5–7.
Fig. 3 Molecular structure at 30% probability level and intramolecular interactions of dioxalamides 5–7.

In compound 5, both oxalamide side arms are almost planar with C1–N7–C8–O8 and C3–N17–C18–O18 torsion angles close to 0°. Phenylamide carbonyls (C8[double bond, length as m-dash]O8 and C18[double bond, length as m-dash]O18) are both exo positioned to the cavity and anticlinal (ac) to the mean plane of the phenyl ring, one of them above and the other below the phenyl ring plane with C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles of −126.5(5)° and −144.5(4)°, respectively. This last conformation brings about the formation of intramolecular C4–H4⋯O18 HB, S(6) ring, at the expense of two S(7) rings in the parent oxalamate 2. In addition N7–H7⋯O9, N10–H10⋯O8, N17–H17⋯O19 and N20–H20⋯O18 hydrogen bonding, typical of oxalamides, are observed. Therefore, the intramolecular hydrogen bonding pattern is depicted by two sets of adjacent HB ring systems [S(5)S(5)S(6)] and [S(5)S(5)], Fig. 3(a).

Compound 6 has a crystallographic plane of symmetry and thus only one half of the molecule is observed. The fragment N–CO–CO–N of the oxalamide arms is almost planar with C1–N7–C8–O8 and N10–C11–C12–O13 torsion angles of 10.3(6)° and −177.3(3)°, respectively. The OH group at the end of the arm is in a gauche conformation with O13–C14–C15–O16 torsion angle of 69.1(4)°. Both arms are synclinarly (sc) positioned with respect to the mean plane of the phenyl ring, with C2–C1–N7–C8 torsion angle of −72.4(4)° and the phenylamide carbonyl pointing towards the cavity. The intramolecular HB scheme is described as two sets of [S(5)S(5)] ring systems, Fig. 3(b).

The conformation of oxalamide 7 strongly resembles the conformation observed for the parent oxalamate 4: the oxalamide arms are ap to the phenyl ring (C2–C1–N7–C8 = −176.1(3)° and C2–C3–N17–C18 = −177.6(3)°), both are exo disposed to the cavity and the OMe group is almost perpendicular to the phenyl ring (C1–C2–O24–C25 = 88.6(3)°). The OH group at the end of the arm is in a gauche conformation with N10–C11–C12–O13 and N20–C21–C22–O23 torsion angles of −59.5(3)° and 66.2(3)°, respectively, Fig. 3(c).

The substitution of EtO in oxalamates 2–4 for RNH in oxalamides 5–7 increases the intramolecular HB, allowing the formation of an additional S(5) ring in each arm due to the (t,a,t) conformation of the dioxalamide RHN–CO–CO–NHPh fragment. Therefore, the following patterns are observed: [S(5)S(5)S(6)] and [S(5)S(5)] for 5, two sets of [S(5)S(5)] rings for 6 and eight adjacent rings [S(5)S(5)S(6)S(5)S(5)S(6)S(5)S(5)] for 7. At this point it is worthy to note that the C1–N7/C3–N17 distances enlarge when the oxalyl arm is out of the mean plane of the phenyl ring. This result is consistent with the C1–N7 distance value of 1.414 Å measured in planar N,N'-bis(3,5-dimethyl-phenyl)oxalamide,13 similar to the C1–N7/C3–N17 distance values observed in the corresponding in plane arm of compounds 3–5 and 7. In contrast, a C1–N7 distance value of 1.435 Å has been measured in the almost perpendicular N,N'-bis-(2,4,6-trimethyl-phenyl)oxalamide,13 in agreement with C1–N7/C3–N17 distance values observed in the corresponding out of plane arm of compounds 2, 3, 5 and 6.

Gas phase structure of 2–7. Ab initio theoretical calculations performed in diethyl N,N'-[1,3-phenyl]dioxalamate have pointed out that the conformer exo(ap)–exo(ap), polymorph 1′, is more stable than the endo(sp)–endo(sp) conformer, polymorph 1, just by 1.0–2.0 kcal mol−1, this energy becomes smaller when acetone is included as a solvent.10a,23 This small difference in energy has been used to explain the occurrence of both polymorphs. In order to gain more information about the preferred conformation and the intramolecular hydrogen bonding interactions, density functional theoretical (DFT) calculations were performed in compounds 2–7. The exo(ap)–exo(ap) conformer is predicted as the most stable for compounds 2, 4, 5, and 7. In the case of compound 2 and its derived oxalamide 5, DFT calculations do not agree with XRD. Compound 2 showed two energy minima, one of which correspond to the conformer exo(ap)–exo(ap) with C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles very close to 180° and the other corresponding to the conformer endo(sc)–endo(sc) with C2–C1–N7–C8 and C2–C3–N17–C18 torsion angles of 59.9° and 66.7°, respectively. The energy difference between both conformers is 5.7 kcal mol−1 in favor of the exo(ap)–exo(ap) conformer, larger than the conformational barrier of 4.4 kcal mol−1 reported for compound 1.10a This gap in energy is expected because of the steric restraints to rotation imposed by C2-Me group. It is worthy to mention that this last conformer has the largest dipole moment of 4.07 Debyes, against 0.29 Debyes shown by the conformer endo(sc)–endo(sc). The amide N atom bears a positive formal charge (0.201) in the exo(ap)–exo(ap) conformer and a negative formal charge (−0.152 and −0.149) in the endo(sc)–endo(sc) conformer, in agreement with the absence of the N lone pair conjugation into the phenyl ring in the last conformer.

When the steric effect is increased by substitution in C4 and C6 positions, compounds 3 and 6, both oxalamate groups are tilted out of the phenyl mean plane to give conformers very similar to those found by X-ray. In compound 3, the conformers endo(sc)–endo(sc), exo(ac)–exo(ac) and exo(ac)–endo(sc) (from XRD) were tested, this last one is more stable than the other two by 1.8 and 1.1 kcal mol−1, respectively. In the case of oxalamide 6, the endo(sc)–endo(sc) conformer was the predicted one, in close agreement with the XRD structure. The calculated planar exo(ap)–exo(ap) conformers of 4 and 7 are in close agreement with XRD structures. In both cases, the N atoms bear a positive formal charge as a consequence of the conjugation of the lone pair of electrons into the phenyl ring. The optimized structures and formal charges are shown in Fig. 4. The exo(ap)–exo(ap) conformation is more stable than the other conformations due to the conjugation that stabilizes the molecule and minimizes the conformational energy.


Molecular structures and charges of the most stable optimized conformers of compounds 2 (a), 3 (b), 4 (c) and 6 (d) at DFT/PBEPBE 6-31+G (3df, 3pd) level of theory.
Fig. 4 Molecular structures and charges of the most stable optimized conformers of compounds 2 (a), 3 (b), 4 (c) and 6 (d) at DFT/PBEPBE 6-31+G (3df, 3pd) level of theory.
Hydrogen bonding in solution by 1H NMR. At this point the question remains whether, in the case of compounds 4 and 7, the observed conformers are the result of the minimization of electronic repulsive interactions between amide and OMe oxygen atoms or hydrogen bonding interactions. To address this issue, the dependences of the chemical shift with temperature (ΔδT) of the amide protons were measured in DMSO-d6 solutions. This coefficient has been routinely used to estimate the proton mobility and the thermodynamic parameters associated with intra or intermolecular hydrogen bonding formation.22–24 In amides, ΔδNH/ΔT values smaller than 3.0 ppb K−1, in DMSO, are associated with low mobility protons and thus indicate a strong intramolecular hydrogen bond. Another indicator of low mobility is a small difference between chemical shifts measured in DMSO-d6 and CDCl3 solutions (ΔδNH). In Table 3 are summarized the relevant 1H NMR data of compounds 1–7. The chemical shifts of the NHPh signals of compounds 1–7 in DMSO-d6 appear in the range of 10.8 to 9.9 ppm, in agreement with their more acidic character than the NHR signals, in compounds 5–7, which are at lower frequencies, 9.0–8.8 ppm. Nevertheless ΔδNH/ΔT values of both amide protons indicate moderate intramolecular hydrogen bonding in compounds 1–4 and 6. It is worthy to note that the mobility of the NHPh proton is increased in oxalamide 5δNHPh = −9.3 ppb K−1) in comparison with its parent oxalamate 2δNHPh = −4.7 ppb K−1), in agreement with more intermolecular hydrogen bonding character in 5. In contrast, intramolecular hydrogen bonding is strengthened in oxalamide 7 if compared to its parent oxalamate 4. Actually, the ΔδNHPh/ΔT value of −2.0 ppm K−1, in the former, is in agreement with strong intramolecular three-centred hydrogen bonds O9⋯H7⋯O23⋯H17⋯O19. The corresponding value in compound 4 is in accordance with moderate intramolecular hydrogen bonding but the smallest ΔδNHPh value indicates the lowest mobility among the oxalamates 1–4. Besides, the IR vibrational frequency of NHPh is shifted from 3378 cm−1 in 4 to 3357 cm−1 in 7 as reported for three-centred hydrogen bonded oxalamates25 and bisoxalamides.22 These results confirm that the same scheme of intramolecular hydrogen bonding found by XRD in compounds 4 and 7 is persistent in solution and thus the hydrogen bonding nature of the observed conformation.
Table 3 δX1H and ΔδX1H/ΔTNMR data (X = N, O) of compounds 1–7 in DMSO-d6a
Parameter Compound
1 2 3 4 5 6 7
a δ 1HDMSO-d6δ1HCDCl3 available only for 1–4 for solubility restrictions.
δNHPh 10.82 10.48 10.37 10.04 10.29 10.25 9.90
ΔδNHPha 1.89 1.62 1.90 0.79      
ΔδNHPh/ΔT −5.50 −4.70 −5.21 −4.20 −9.30 −5.39 −2.00
δNHR         8.81 8.80 8.97
ΔδNHR/ΔT         −4.96 −5.50 −4.9
δOH         n.o. 4.65 n.o.
ΔδOH/ΔT           −5.43  


2.3 Crystal packing and supramolecular arrangement

Compounds 2 and 3 crystallize as monoclinic systems, space groupP21/c with four molecules in the unit cell, compounds 4 and 5 as triclinic, space groupP[1 with combining macron] with two molecules in the unit cell, whereas compounds 6 and 7 crystallize as monoclinic, space groupC2/c with four molecules in the unit cell. Compound 7 is a special case in which the monoclinic structure has a β angle indistinguishable from 90.0°. The geometric parameters associated with intermolecular non-covalent interactions D–H⋯A are summarized in Table 4. In order to avoid data duplication, the reader is referred to the corresponding entry. Classic hydrogen bonding26 and C–H⋯O27 or C–H⋯π28 interactions are in agreement with accepted criteria. Classification and geometry of CO⋯CO interactions29 and π-stacking30 are in accordance with accepted values.
Table 4 Geometric parameters of intermolecular interactions in compounds 2–7a
Comp. D–H⋯A D–H/Å H⋯A/Å D⋯A/Å D–H⋯A/° HB motif
a Σ∠N7H7/° = 332 (a), 351 (c), 355 (e), 349 (h); Σ∠N17H17/° = 332 (b), 348 (d), 354 (g); Σ∠N10H10/° = 356 (f), 360 (i), 342 (j); Σ∠N20H20/° = 357 (k). Symmetry codes: (i) = 2 − x, −y, 1 − z; (ii) = 1 − x, −y, 1 − z; (iii) = 2 − x, −y, 2 − z; (iv) = x, ½ − y,−½ + z; (v) = 1 − x, −y, −z; (vi) = 2 − x, −y, −z; (vii) = −x, 1 − y, 1 − z; (viii) = −x, −y, 1 − z; (ix) = −x, 1 − y, −z; (x) = −1 − x, −y, 1 − z; (xi) = ½ + x, ½ − y, ½ + z; (xii) = ½ − x, ½ − y, −z; (xiii) = −½ − x, ½ − y, −z; (xiv) =x, −y, −z; (xv) = −½ + x, ½ + y, z; (xvi) = −½ − x, ½ + y, ½ − z; (xvii) = −x, y, ½ − z.
2 N7–H7a⋯O18i 0.86 2.39 3.074(2) 137 R 2 2(16)
N7–H7⋯πi 0.86 3.18 3.710(2) 123 R 2 2(6)
N17–H17b⋯O8ii 0.86 2.32 2.995(2) 136 R 2 2(16)
C11–H11A⋯O18iii 0.97 2.59 3.433(3) 145 R 2 2(24)
3 N7–H7c⋯O18iv 0.86 2.24 3.060(4) 160 C(8)
C24–H24C⋯O18iv 0.96 2.52 3.281(4) 136 C(9)
N17–H17d⋯O8v 0.86 2.15 2.903(4) 149 R 2 2(16)
4 C24–H24C⋯O9vii 0.96 2.41 3.348(5) 167 R 2 2(18)
C21–H21B⋯πii 0.96 2.85 3.668(4) 142 R 2 2(14)
5 N7–H7e⋯O18viii 0.86 2.18 2.937(5) 146 R 2 2(16)
N10–H10f⋯O8ix 0.86 2.19 2.969(6) 151 R 2 2(10)
N17–H17g⋯O19x 0.86 2.20 2.932(5) 142 R 2 2(10)
N20–H20⋯O9viii 0.86 2.49 3.306(5) 159 R 2 2(24)
6 N7–H7h⋯O16xi 0.86 2.12 2.928(4) 157 R 2 2(30)
N10–H10i⋯O8xii 0.86 2.07 2.888(4) 158 R 2 2(10)
O16–H16⋯O9xiii 0.84 1.97 2.798(3) 167 R 2 2(34)
7 N10–H10j⋯O13xiv 0.86 2.40 3.139(3) 144 R 2 2(10)
O13–H13⋯O19xiii 0.84 2.08 2.893(3) 164 R 2 2(30)
C25–H25A⋯O9xiii 0.96 2.53 3.274(4) 134 R 2 2(18)
C22–H22A⋯O8xv 0.97 2.46 3.279(3) 142 C(13)
O23–H23⋯O9xvi 0.84 2.03 2.817(3) 156 C(15)
N20–H20k⋯O23xvii 0.86 2.14 2.922(3) 150 R 2 2(10)
C27–H27B⋯O24xvii 0.96 2.55 3.377(4) 144 R 2 2(16)


Oxalamates 2–4. The zero dimensional array (0-D) of compound 2 is given by pairing of two centrosymmetric molecules through self-complementary strong N17–H17⋯O8iihydrogen bonding, with the participation of the amide group as both hydrogen donor and acceptor. Intercentroid and interplanar distances of 4.5642(14) and 3.6254(9) Å, respectively, suggest a parallel displaced pd–π⋯πii stacking interaction between phenyl rings (symmetry code ii: 1 − x, −y, 1 − z). The resulting ring motif R22(16) is developed into 1-D columns by self-complementary amide N7–H7⋯O18ihydrogen bonding interactions, which describe a second R22(16) ring motif. In addition, two π-interactions strengthen the column assembly: N7–H7⋯πi and pd–π-stackingi, this last with 4.5383(14) and 3.5815(9) Å of intercentroid and interplanar distances (i: 2 − x, −y, 1 − z). The whole 1-D array is depicted as a column developed by antiparallel C22(8)[R22(16) R22(16)] chains (second level graph set descriptor) developing along the direction of the a axis, Fig. 5. The second dimension (2-D) is arranged by C11–H11A⋯O18iii soft interactions that link the columns forming R22(24) ring motifs along the direction of the c axis (iii: 2 − x, −y, 2 − z).
1-D columns along the a axis formed by N–H⋯O, N–H⋯π and pd–π-stacking interactions in compound 2.
Fig. 5 1-D columns along the a axis formed by N–H⋯O, N–H⋯π and pd–π-stacking interactions in compound 2.

Compound 3 also forms amide-linked centrosymmetric dimers, as in 2, through the ac-oxalamate side arm N17–H17⋯O8v (v: 1 − x, −y, −z) to define a R22(16) ring motif. In this case each dimer is connected with four other dimers through N7–H7⋯O18ivhydrogen bonding and C24–H24C⋯O18iv interaction, to form R21(7)[C(8)C(9)] second level ring motif (iv: x, ½ − y,−½ + z). This arrangement, viewed in the bc plane, looks like a brick wall-sheet of alternating squared R22(16) and hexagon R66(32) ring motifs, Fig. 6. The R22(16) dimers are pd–π-stackedvi as the intercentroid and interplanar distances of 4.540(2) and 3.6204(13) Å (vi: 2 − x, −y, −z), respectively, indicate.


View in the bc plane of a brick wall-sheet of alternating squared R22(16) and hexagon R66(32) like ring motifs, formed by N–H⋯O hydrogen bonding interactions in compound 3.
Fig. 6 View in the bc plane of a brick wall-sheet of alternating squared R22(16) and hexagon R66(32) like ring motifs, formed by N–H⋯O hydrogen bonding interactions in compound 3.

The extended embracement disposition of 4 and the steric hindrance of the C2-OMe group do not allow intermolecular hydrogen bonding. However, dipolar carbonylcarbonyl and π-stacking interactions direct the formation of centrosymmetric pairs. Two self-complementary sheared parallel carbonylcarbonyl interactions are formed: C8[double bond, length as m-dash]O8⋯C19viii [O8⋯C19 = 3.270(4) Å, C8[double bond, length as m-dash]O8⋯C19 = 104.7(3)°] and C18[double bond, length as m-dash]O18⋯C9viii [O18⋯C9 = 3.144(4) Å, C18[double bond, length as m-dash]O18⋯C9 = 101.9(3)°]. Intercentroid and interplanar distances of 3.7950(18) Å and 3.4580(13) Å, respectively, are in agreement with face to face π-stackingviii (viii: −x, −y, 1 − z), Fig. 7(a). These pairs are linked through weak C24–H24C⋯O9vii interactions with the participation of the methyl group from OMe as the donor and ester carbonyl as the acceptor (vii: −x, 1−y, 1 − z). Thus R22(18) ring motifs are outlined developing 1-D zig-zagging tapes along the direction of the a axis. If intramolecular HB is included, [S(5)S(5)] motifs, chair like H4O4, octagons are also observed, Fig. 7(b). T-Shaped C21–H21B⋯πii interactions, R22(14) motif, are responsible to generate 2-D walls in the direction of the c axis.


Supramolecular structure of compound 4. (a) Centrosymmetric pair linked by CO⋯CO dipolar and pd–π-stacking interactions (hydrogen atoms and t-Bu group are omitted for clarity). (b) 1-D zig-zagging tape linked through weak C24–H24C⋯O interactions along the a axis, chair like H4O4 octagons are also included.
Fig. 7 Supramolecular structure of compound 4. (a) Centrosymmetric pair linked by C[double bond, length as m-dash]O⋯C[double bond, length as m-dash]O dipolar and pd–π-stacking interactions (hydrogen atoms and t-Bu group are omitted for clarity). (b) 1-D zig-zagging tape linked through weak C24–H24C⋯O interactions along the a axis, chair like H4O4 octagons are also included.
Oxalamides 5–7. The typical R22(10)[R22(16) R22(24)] ring motif, in which the anti network is used, gives rise to hydrogen bonded centrosymmetric dimers linked through two self complementary N–H⋯O interactions, N7–H7⋯O18viii (R22(16)) and N20–H20⋯O9viii (R22(24)), in compound 5. In these motifs the hydrogen bonding donor NH and the acceptor CO belong to the same amide type, or amide-like interactions, that is phenylamide or hydroxyethylamide. The intercentroid distance of 4.986(3) Åviii between the phenyl spacers in the R22(16) motif is beyond the limit for a pd–π-stacking interaction. Each dimer is linked to other two also using the N–H⋯O anti network between the NH of phenylamide and the CO of hydroxyethylamide residue and conversely or amide-dislike interactions, forming two R22(10) ring motifs: N10–H10⋯O8ix (ix: −x, 1 − y, −z) and N17–H17⋯O19x (x: −1 − z, −y, 1 − z). The intermolecular spacing along these oxalamide motifs is 5.137(3) and 5.035(3) Å, respectively. The four N–H⋯O hydrogen bonds can be described, at the second level graph set descriptor, as two C44(16)[R22(16) R22(10) R22(10) R22(24)] chains running in the opposite direction, to develop a rough sheet in the [2 8 11] mean plane. The whole crystal packing, Fig. 8(a), is strengthened by the cooperative participation of intramolecular hydrogen bonding S(5) motifs. Thus three centred hydrogen bonding O9⋯H7⋯O18 (Σ∠H7 = 355°) and O9⋯H20⋯O18 (Σ∠H20 = 354°) depict intra-dimers, and O8⋯H10⋯O8 (Σ∠H10 = 356°) and O19⋯H17⋯O19 (Σ∠H17 = 346°) inter-dimer H2O2 squares. The resulting R22(4) pattern is a common structural motif in oxalamide supramolecular architecture. In this molecule both ethanolamine residues are disordered. In one arm the residual ethanolamine fragment C11–C12–O13–H13 is moving in three positions with 24, 30 and 46 percent of occupancy and on the other arm, the residual hydroxyl group O23–H23 is moving in two positions with 51% (O23A) and49% (O23B) percent of occupancy. For this last, the O23A⋯O23B distance of 2.810(3) Å was measured, in agreement with other similar structures9d forming a R22(8) ring to reinforce 2-D, Fig. 8(b).
(a) Partial view of the rough complex sheet of compound 5, developed by N–H⋯O and O–H⋯O hydrogen bonding interactions in the [2 8 11] mean plane (hydrogen atoms not involved in HB have been omitted for clarity). OxalamideR22(10) and R22(16) ring motifs are clearly appreciated as well as disordered ethanolamine fragment C11–C12–O13–H13. (b) A detail of the disordered hydroxyl group O23–H23 showing the R22(8) ring motif through O–H⋯O interactions.
Fig. 8 (a) Partial view of the rough complex sheet of compound 5, developed by N–H⋯O and O–H⋯O hydrogen bonding interactions in the [2 8 11] mean plane (hydrogen atoms not involved in HB have been omitted for clarity). OxalamideR22(10) and R22(16) ring motifs are clearly appreciated as well as disordered ethanolamine fragment C11–C12–O13–H13. (b) A detail of the disordered hydroxyl group O23–H23 showing the R22(8) ring motif through O–H⋯O interactions.

Molecule 6 is linked to other molecule, forming centrosymmetric pairs, by N10–H10⋯O8xii (xii: ½ − x, ½ − y, −z), N7–H7⋯O16xi (xi: ½ + x, ½ − y, ½ + z) and O16–H16⋯O9xiiihydrogen bonding to form R22(16)[R22(10)R22(36)] ring motif. The intermolecular spacing along the oxalamideR22(10) motif is 5.060(3) Å. The propagation of these hydrogen bonding interactions along the (2 0 −2) direction gives rise to a meso-helix. The turn of the helix measures 18.0 Å between two phenyl rings, longer than 15.0 Å measured in the polymorph 1′.10c The meso-helix can be regarded as the alternate propagation of helical conformers of opposite chirality (M and P) around the inversion centre thus the twist sense changes every half-turn of the helix, Fig. 9(a). To the best of our knowledge compound 6 is the first example of helical 1,3-phenyl-dioxalamide. An infinite number of helixes are interlinked by O16–H16⋯O9xiii (xiii: −½ − x, ½ − y, −z) interactions through the ending ethanolamine OH and the ethanolamide CO, forming R22(34) ring motifs, which combined with the above mentioned N7–H7⋯O16 interactions depict a R22(7)[R22(30) R22(34)] second level ring motif. A view of the full set of hydrogen bonding motifs in the ac plane is shown in Fig. 9(b). H2O2 squares and H4O4 boat like octagons appear as intrahelix and interhelix motifs, when three-centred HB is considered: O8⋯H10⋯O8 (Σ∠H10 = 360°) and O9⋯H7⋯O16 (Σ∠H7 = 349°), respectively. Better appreciated is the 20-membered ring in the top view of the helix shown in Fig. 9(c). The whole 2-D architecture is composed of independent-weaving sheets propagating in the (2 0 −2) direction.


(a) View of supramolecular meso-helix of compound 6, hydrogen bonding interactions lie in the plane. (b) View of the full set of hydrogen bonding motifs in the ac plane: N10–H10⋯O8 (R22(10)), N7–H7⋯O16 and O16–H16⋯O9, intrahelix H2O2 squares and interhelix H4O4 boat like octagons are highlighted. (c) Top view of R22(20) interhelical ring motif.
Fig. 9 (a) View of supramolecular meso-helix of compound 6, hydrogen bonding interactions lie in the plane. (b) View of the full set of hydrogen bonding motifs in the ac plane: N10–H10⋯O8 (R22(10)), N7–H7⋯O16 and O16–H16⋯O9, intrahelix H2O2 squares and interhelix H4O4 boat like octagons are highlighted. (c) Top view of R22(20) interhelical ring motif.

In molecule 7, where the adopted conformation maximizes the intramolecular hydrogen bonding, also centrosymmetric dimers are formed by hydrogen bonding between one ending hydroxyl group and RNHCO amide carbonyl O13–H13⋯O19xiii, and also by C25–H25A⋯O9xiii soft interactions to form R22(16)[R22(30) R22(18)] second level ring motif. One dimension is generated by the propagation of this motif along the direction of the b axis through N10–H10⋯O13xiv (xiv: −x, −y, −z) hydrogen bonding to form R22(10) ring motifs and C22–H22A⋯O8xv (xv: −½ + x, ½ + y, z) forming C(13) chains, Fig. 10(a). The curvature of the assembly is inherently imprinted by the exo–exo symmetric disposition of the oxalamide arms. The remaining OH, NH and CO groups link the curved chains through O23–H23⋯O9xvi (xvi: −½ − x, ½ + y, ½ − z) and N20–H20⋯O23xvii (xvii: −x, y, ½ − z) interactions, to form C(15) and R22(10) ring motifs. The second dimension is strengthened by the soft contact C27–H27B⋯O24xvii between t-Bu and OMe groups, dipolar carbonylcarbonyl and π-stacking interactions to form π-stacked pairs. Both π-stacked molecules are related by C2 symmetry axis, in close similarity with the parent oxalamate 4: two self-complementary sheared parallel carbonylcarbonyl interactions C8[double bond, length as m-dash]O8⋯C19xvii [O8⋯C19 = 3.235(4) Å, C8[double bond, length as m-dash]O8⋯C19 = 105.2(2)°], C18[double bond, length as m-dash]O18⋯C9xvii [O18⋯C9 = 3.284(4) Å, C18[double bond, length as m-dash]O18⋯C9 = 100.4(2)°] and a face-to-face π-stackingxvii with intercentroid and interplanar distances of 3.6756(17) and 3.3608(11) Å, respectively, Fig. 10(b). Thus the full architecture is seen, in the bc plane, as a wall formed by lines of molecules alternately linked only by HB and then by a combination of HB and π-stacking interactions, running along the (−1 0 14) direction, Fig. 10(c). Hydrophobic contacts among these blocks along the direction of the a axis are given between tert-butyl groups with C29⋯C29 distance of 4.184(4) Å.


(a) Supramolecular 1-D chains formed by O–H⋯O, N–H⋯O and C–H⋯O interactions along the b axis in compound 7. (b) Molecular pair formed by CO⋯CO dipolar and face-to-face π-stacking interactions. (c) Full supramolecular architecture shown as a wall formed by lines of molecules alternately linked only by HB and then by a combination of HB and π-stacking interactions, running along the (−1 0 14) direction.
Fig. 10 (a) Supramolecular 1-D chains formed by O–H⋯O, N–H⋯O and C–H⋯O interactions along the b axis in compound 7. (b) Molecular pair formed by C[double bond, length as m-dash]O⋯C[double bond, length as m-dash]O dipolar and face-to-face π-stacking interactions. (c) Full supramolecular architecture shown as a wall formed by lines of molecules alternately linked only by HB and then by a combination of HB and π-stacking interactions, running along the (−1 0 14) direction.

3. Discussion

The lengthening of the C1–N7/C3–N17 bonds suggests that the twisted conformation breaks the conjugation between the phenyl ring and the amide bond and directs the two oxalyl arms one above and the other below the plane of the phenyl ring. The XRD conformations exhibited by compounds 2–7 are the result of maximization of intramolecular hydrogen bonding and C–H⋯OC interactions, both assisted by dipole–dipole interactions coming from favorable antiparallel arrangements of the local N–H⋯OC dipoles. The conformation of oxalamates 3 and 4 is reliable; it is almost the same in oxalamides 6 and 7, whereas the conformation of oxalamate 2 does not remain in the corresponding oxalamide 5. The transformation of oxalamate into the corresponding oxalamide is accompanied with an increase in the hydrogen bonding capabilities. Intramolecular hydrogen bonding is increased by one S(5) ring motif per arm. The hydrogen bonding nature of the intramolecular O9⋯H7⋯O23⋯H17⋯O19 interactions in compound 7 was confirmed by ΔδNHPh/ΔT measurements, with a value of −2.0 ppm K−1.

Theoretical calculations predict the exo(ap)–exo(ap) conformer as the most stable in compounds 2, 4, 5 and 7 and conformer endo(sc)–endo(sc) in compounds 3 and 6 in agreement with the steric effects exerted by the substituents in the phenyl ring. Differences between theoretical predictions and XRD structures in compounds 2 and 5 can be attributed to intramolecular C–H⋯OC interactions which are strong enough to overcome the small energy difference between both conformers.

There is a clear trend, in the solid state, to adopt an exo(ap)–exo(ap) conformation by increasing the steric requirements of the C2-substituent. Further substitution in C4 and C6 leads to both oxalyl arms almost perpendicularly positioned to the phenyl ring resulting in a very reliable conformation also observed in diamides derived from 2,4,6-trimethyl-benzene-1,3-diamine.18

Intermolecular NH⋯O[double bond, length as m-dash]C(amide) hydrogen bonds are preferred over NH⋯O[double bond, length as m-dash]C(ester) as supramolecular synthons in the formation of crystal networks by dioxalamates 2 and 3. This last interaction is exclusively used for intramolecular hydrogen bonding. Carbonyl amide groups are also differentially used for hydrogen bonding in oxalamides, NH⋯O[double bond, length as m-dash]C amide dislike interactions are mainly used for intramolecular HB in oxalamides 5–7 and for supramolecular synthons only when also involved in intramolecular three-centred hydrogen bonding. NH⋯O[double bond, length as m-dash]C amide-like interactions are exclusively used for intermolecular hydrogen bonding in compound 5.

This set of compounds appears as centrosymmetric pairs in the 0-D which further develop 1-D as π-stacked columns, tapes, helix or chains. Walls or zig-zagging, rough or weaving sheets give shape to the 2-D. It is worthy to note that 0-D and 1-D arrays are directed by strong amide N–H⋯O self-complementary hydrogen bonding in dioxalamates 2 and 3 whereas the 2-D is structured through weak C–H⋯O interactions. Hydroxyl combined with amide moieties are not enough to develop a strong 3-D in oxalamides 5 and 6, although they show more complex networks in comparison with their parent oxalamates.

Instead of the characteristic R22(10) ring motif frequently observed in oxalamide and oxalamate supramolecular architectures, the R22(16) ring motif is recurrent in oxalamates 2 and 3, and in oxalamide 5. This motif appears associated with pd–π-stacking interactions between the phenyl spacers in oxalamates 2 and 3, but not in 5. This motif is also observed in diamides derived from 2,4,6-trimethyl-benzene-1,3-diamine18 and strongly resembles the supramolecular staircase 1-D motif shown by polymorph 1.

In spite of the presence of sterically demanding groups in 5 and 6, the R22(10) (NH⋯OC) oxalamide supramolecular motif persists, in contrast with CCDB searches which suggest that in most of the cases when this motif was not present this was due to severe derivatization or the presence of sterically demanding groups.31 The intermolecular spacing along the oxalamideR22(10) tape, in 5 and 6, is in the reported range for other oxalamides.7e Among the set of compounds analyzed, compound 5 shows both R22(10) and R22(16) ring motifs, however this last is not associated with π-stacking interactions, mainly because of the length of the oxalamide arm whose involvement in R22(10) hydrogen bonding motif slips the phenyl planes beyond the limits for such interaction. Whereas the 1-D meso-helix arrangement of oxalamide 6 is similar to that reported for polymorph 1′.

On the other hand, the PhNHCO groups are exclusively engaged in intramolecular three-centred hydrogen bonding, in compounds 4 and 7, and thus are not available for intermolecular interactions. Extensive intramolecular hydrogen bonding, especially when at least four adjacent rings of six or five members are formed, avoids the participation of the amide group in intermolecular hydrogen bonding as has also been observed for oxalamides derived from amino acids.7e Such is the case of compounds 4 and 7. However, in contrast with similar bis-aryloxalamides/oxalamates o-substituted with groups capable of HB, which are characterized for their lack of a supramolecular structure,22 compounds 4 and 7 form well defined 2-D crystal networks built by the concurrence of more varied interactions: CO⋯CO, C–H⋯A (A[double bond, length as m-dash]O, π) and π-stacking interactions, additionally strengthened by NH⋯OH, OH⋯O[double bond, length as m-dash]C HB in oxalamide 7. Among them, CO⋯CO interactions play an important role since they are comparable with hydrogen bonding.28

Blocking 4 and 6 positions is required to maintain a reliable out of-the-plane conformation on the transformation from oxalamates to oxalamides. Nevertheless, the twisted conformation is not enough for intermolecular HB as reported in bis-oxalamides. Neither twisted nor planar conformation forms homomeric intermolecular hydrogen bonding, since bis-oxalamides are discrete units in the solid state.13 The increase in the number of moieties per molecule capable of forming non-covalent interactions plays a decisive role. Thus in 1,3-phenyl-dioxalamates/dioxalamides both twisted and planar conformations are capable to develop 2-D networks.

4. Conclusions

Conformational control of the oxalamate/oxalamide cavities was demonstrated through the use of substituents in the C-2 position. The bulky methyl group favours the out-of-plane conformation in compounds 2 and 5. Whereas the participation of the methyl group in C–H⋯OC interactions favors the endo conformation of the phenylamide carbonyl. Further increasing steric strain with methyl groups in C–4 and C–6 permanently fixes the twisted conformation in compounds 3 and 6. Meanwhile the cooperative participation of the bulky OMe group and its hydrogen-bonding accepting nature leads to the exo conformation in compounds 4 and 7. Particularly the role of intramolecular three-centred hydrogen bonding interactions in the stabilization of the exo(ap)exo(ap) conformation was demonstrated by variable temperature 1H NMR experiments and IR spectra.

Intramolecular hydrogen-bonding interactions are determinant in the adopted conformation and exert a strong influence on the nature of non-covalent interactions that rule the organization at the supramolecular level. More than four adjacent S(n) rings (n = 5, 6), in the same molecule, avoid intermolecular hydrogen bonding leading to CO⋯CO, C–H⋯A (A[double bond, length as m-dash]O, π) and π-stacking interactions to direct the crystal organization in compound 4 and 7, strengthened by NH⋯OH, OH⋯O[double bond, length as m-dash]C hydrogen bonding in this last.

The twisted conformation of the oxalamate moiety, in compounds 2 and 3, allowed the formation of R22(16) NH⋯OC motif which appears associated with pd–π-stacking interactions between the phenyl spacers. This motif strongly resembles the reported one for polymorph 1. In contrast, the twisted conformation of the oxalamide moiety, in compound 6, forms the robust oxalamide tapes characterized by the occurrence of the R22(10) NH⋯OC motif, developing meso-helixes in 1-D, in close similarity with the reported structure of polymorph 1′. Oxalamide 5 shows both R22(16) and R22(10) motifs forming rough 2-D sheets.

Supramolecular versatility of phenyl-oxalamate/oxalamide moieties was demonstrated by means of the formation of dimers (0-D), π-stacked columns, tapes, chains, or helixes (1-D) and sheets or walls (2-D). The lengthening of the oxalyl arm in oxalamides in comparison with oxalamates, slips the phenyl rings beyond π-stacking interactions, in compound 5, and enlarges the turn of the helix in compound 6. Dimensionality is not increased on going from oxalamates 2–4 to oxalamides 5–7, just the 2-D is strengthened showing more complex networks.

The conformations of amide/oxalamate/oxalamide derivatives of the parent 2,4,6-trimethyl-benzene-1,3-diamine and 5-tert-butyl-2,6-diamineanisol are reliable, the former is twisted up and down from the phenyl spacer and the latter is planar and exo to the cavity. In contrast, amide/oxalamate/oxalamide derivatives of both 1,3-diaminobenzene and 2-methyl-benzene-1,3-diamine are more versatile, their final conformation will depend on the forces that bind the crystal lattice.

Among the set of studied compounds, oxalamide derivatives of 2,4,6-trimethyl-benzene-1,3-diamine are prone to form 1-D meso-helix supramolecular architectures. The turn of the helix could be modulated by the pendant RNHCO residue.

5. Experimental

5.1 General methods

All chemicals and solvents were of reagent grade and used as received. Melting points were measured on an Electrothermal IA 9100 apparatus and were uncorrected. IR spectra were recorded neat using a Varian 3100 FT-IR with ATR system Excalibur Series spectrophotometer. Mass spectra were obtained in a Bruker Esquire 6000 spectrometer with an electron ionization mode. 1H and 13C NMR spectra were recorded on a Varian Mercury 300 (1H, 300.08; 13C, 75.46 MHz) instrument in CDCl3 solutions (2–4) or DMSO-d6 (5–7), measured with SiMe4 as the internal reference, chemical shifts are in ppm and nJ(H–H) in hertz. Variable temperature experiments were performed in the same apparatus equipped with a temperature controller to keep the temperature constant within 0.3 °C, from 20–120 °C in 10 °C increments with a delay of 5 min for temperature stabilization. Each spectrum was recorded with 16 scans.
XRD experiments. Single-crystal X-ray diffraction data for molecules 2–7 were collected on a Bruker Apex II or Nonius Kappa area detector diffractometers at 293(2) K (2–4) or 173(2) K (5–7) with Mo Kα radiation, λ = 0.71073 Å. A summary of crystal data and collection parameters is listed in Table 5. A semiempirical absorption correction was applied using SADABS31 and the program SAINT32 was used for integration of the diffraction profiles. The structures were solved by direct methods using SHELXS9733 program of WinGX package.34 The final refinement was performed by full-matrix least-squares methods on F2 with SHELXL9732 program. H atoms on C, N and O were positioned geometrically and treated as riding atoms, with C–H = 0.93–0.98 Å, and with Uiso(H) = 1.2Ueq(C). The program Mercury was used for visualization, molecular graphics and analysis of crystal structures,35 the software used to prepare material for publication was PLATON.36 Molecule 4 is disordered in both ethyl and t-Bu groups. The ethyl group is disordered over two positions (C11A and C11B, C12A and C12B) with refined occupancy factors 0.538(17) and 0.462(17) while appropriate similarity restraints were applied to the displacement parameters of both components. The tert-butyl group exhibits orientational disorder, which was modelled with two positions. The disordered C atoms were presumed to have the same anisotropic displacement parameters. Furthermore, C–C (methyl) distances in the tert-butyl group were restrained to be the same for both orientations. The occupancies of the two sites converged at 0.646 (14) and 0.354 (14). Crystals suitable for X-ray analysis were obtained from THF (compounds 3 and 4), DMSO (compounds 5, 6 and 7) or N,N-dimethylformamide (compound 2). Three batches of crystals from compound 5 were independently obtained and analyzed by XRD to give the same space group and thus the same crystalline structure.
Table 5 Crystal data and collection parameters
Parameter Compound
2 3 4 5 6 7
CCDC no. 795133 801211/795129 795131 801212 801213 801214
Formulae C15H18N2O6 C17H22N2O6 C19H26N2O7 C15H20N4O6 C21H32N4O8 C19H28N4O7
Form. Wt. 322.31 350.37 394.42 352.35 468.5 424.5
Crystal system Monoclinic Monoclinic Triclinic Triclinic Monoclinic Monoclinic
Space group P21/c P21/c P[1 with combining macron] P[1 with combining macron] C2/c C2/c
a 8.2302(12) 8.0352(7) 9.9640(3) 9.0080(18) 11.4567(6) 13.0660(30)
b 23.218(3) 16.0173(14) 10.2180(3) 9.5510(19) 12.9050(7) 24.3840(50)
c 8.1795(12) 14.3980(14) 10.5790(4) 10.5930(19) 16.4558(10) 13.3030(30)
α 90 90 80.969(2) 94.800(20) 90.000(0) 90.000(0)
β 94.665(2) 102.681(2) 87.691(2) 99.010(30) 101.828(2) 90.000(30)
γ 90 90 87.649(2) 109.340(30) 90.000(0) 90.000(0)
V3 1557.8(4) 1807.9(3) 1062.20 840.3(3) 2381.31(10) 4238.35(16)
Z 4 4 2 2 4 8
Measured reflections 14[thin space (1/6-em)]126 10[thin space (1/6-em)]973 11[thin space (1/6-em)]563 5214 7143 11[thin space (1/6-em)]757
Independent reflections 2745 3184 3246 2956 2096 3613
GOOF 1.160 1.050 1.157 0.960 0.820 1.121
R int 0.030 0.060 0.125 0.033 0.050 0.071
R[F2 >2σ(F2)] 0.054 0.052 0.082 0.080 0.068 0.055
wR(F2) 0.125 0.103 0.215 0.243 0.170 0.186


Theoretical calculations. Geometry optimization was carried out using the DFT/PBEPBE method with the 6-31+G (3df, 3pd) basis set. All calculations were done using the Gaussian98 program.37

5.2 Synthesis of compounds

Compounds 2 and 3 were prepared as reported.38
Diethyl N,N′-[1,3-(2-methyl)phenyl]dioxalamate 2. White solid, mp: 134–136 °C, IRν (neat) (cm−1): 3241 (N–H), 1681 (C[double bond, length as m-dash]O). 1H NMR: 8.86 (s, 2H, NH), 7.70 (d, 2H, 3J = 8.2), 7.28 (t, 1H, 3J = 8.2), 4.42 (q, 4H, O–CH2, 3J = 7.0), 2.20 (s, 3H, CH3), 1.42 (t, 6H, CH2–CH3, 3J = 7.0). 13C NMR: 161.1 (C9), 154.5 (C8), 134.9 (C1, C3), 127.4 (C5), 123.0 (C2), 121.4 (C4, C6), 64.1 (C11), 14.2 (C12), 12.3 (Me). ESI MS [M + Na]+ = 344.8 m/z. Anal. Calcd for C15H18N2O6 (%): C 55.90, H 5.63, N 8.69. Found: C 55.58, H 5.75, N 9.09.
Diethyl N,N'-[1,3-(2,4,6-trimethyl)phenyl]dioxalamate 3. White solid, mp: 194–196 °C, IRν (neat) (cm−1): 3225 (N–H), 1685 (C[double bond, length as m-dash]O). 1H NMR: 8.47 (s, 2H, NH), 7.00 (s, 1H, Ph), 4.39 (q, 4H, O–CH2, 3J = 7.1), 2.17 (s, 6H, 2CH3), 2.06 (s, 3H, CH3), 1.41 (t, 6H, CH2CH3, 3J = 7.1). 13C NMR: 160.9 (C9), 155.1 (C8), 135.3 (C1, C3), 132.7 (C4, C6), 130.8 (C5), 130.4 (C2), 63.9 (C11), 18.5 (2Me), 14.3 (Me), 14.1 (C12). ESI MS [M + Na]+ = 372.8 m/z. Anal. Calcd for C17H22N2O6 (%): C 58.28, H 6.33, N 8.00. Found C 58.03, H 6.25, N 10.56.
Diethyl N,N'-[1,3-(5-tert-butyl-2-methoxy)phenyl]-dioxalamate 4. 5-tert-Butyl-2,6-diamineanisol (2 g, 10.2 mmol) in THF (50 ml) and triethylamine (3.15 ml, 22.61 mmol) was treated dropwise under vigorous stirring with ethyl chlorooxalacetate (2.52 ml, 22.61 mmol) at 5–10 °C. After stirring for an additional 24 h at 25 °C, the solid was removed and washed with THF to give 4 (12.43 g, 87.2% yield) as a yellow solid, mp: 173–175 °C. IRν (neat) (cm−1): 3372 (N–H), 1708 (C[double bond, length as m-dash]O). 1H NMR: 9.25 (s, 2H, NH), 8.21 (s, 2H, Ph), 4.40 (q, 4H, O–CH2, 3J = 7.1), 3.81 (s, 3H, O–CH3), 1.38 (t, 6H, –CH2–CH3, 3J = 7.1), 1.28 (s, 9H, 3CH3). 13C NMR: 160.8 (C9), 154.1 (C8), 149.2 (C2), 137.0 (C5), 129.4 (C1, C3), 114.7 (C4, C6), 63.9 (C11), 61.7 (MeO), 35.3 (C(Me)3), 31.3 (3Me), 14.3 (C12). ESI MS [M + Na]+ = 416.9 m/z. Anal. Calcd for C19H26N2O7 (%): C 57.86, H 6.64, N 7.10. Found (%): C 57.80, H 6.60, N 7.44.
N 1,N1′-(1,3-(2-Methyl)-phenyl)-bis-(N2-(2-hydroxyethyl)-oxalamide) 5. A solution of 2 (0.3 g, 0.930 mmol) in methanol (30 ml) and ethanolamine (0.111 ml, 1.861 mmol) was refluxed for 24 h. The suspension was filtered off and the resulting solid was washed with acetone (3 ml) and dried to yield 0.327 g (50.6%) of a white solid, mp: 232–234 °C. IRν (neat) (cm−1): 3282 (N–H), 1657 (C[double bond, length as m-dash]O) cm−1. 1H NMR: 10.28 (s, 2H, N7–H), 8.78 (t, 2H, N10–H), 7.18–7.29 (m, 3H, Ph), 4.70 (b, 2H, OH), 3.48 (t, 4H, OCH2), 3.26 (q, 4H, NCH2), 2.01 (s, 3H, Ar–CH3). 13C NMR: 160.2 (C9), 159.4 (C8), 136.4 (C1), 129.2 (C5), 126.3 (C2), 124.3 (C4), 59.8 (C12), 42.5 (C11), 13.4 (Me). ESI MS [M + Na]+ = 374.8 m/z. Anal. Calcd for C15H20N4O6 (%): C 51.13, H 5.72, N 15.90. Found (%): C 51.03, H 6.00, N 15.90.
N 1,N1′-(1,3-(2,4,6-Trimethyl)-phenyl)-bis-(N2-(2-(2-hydroxy-ethoxy)ethyl)oxalamide) 6. A solution of 3 (0.5 g, 1.427 mmol) in methanol (30 ml) and 2-(2-aminoethoxy)-ethanol (0.284 ml, 2.854 mmol) was refluxed for 24 h. The suspension was filtered off and the resulting solid was washed with acetone (3 ml) and dried to yield 0.462 g (70.29%) of a white solid, mp: 192–194 °C. IRν (neat) (cm−1): 3299 (N–H), 1663 (C[double bond, length as m-dash]O). 1H NMR: 10.20 (s, broad 2H, N7–H), 8.73 (t, 2H, N10–H), 7.00 (s, 1H, Ph), 4.20 (broad, 2H, OH), 3.53 (m, 4H, CH2OH), 3.48 (m, 4H, CH2O–CH2), 3.46 (m, 4H, CH2–OCH2), 3.36 (m, 4H, NCH2), 2.09 (s, 6H, 2CH3), 1.91 (s, 3H, CH3). 13C NMR (δ ppm DMSO-d6): 160.6 (C9), 159.5 (C8), 134.5 (C4), 133.4 (C1), 132.9 (C5), 129.4 (C2), 72.7 (C12), 68.9 (C15), 60.8 (C14), 39.7 (C11), 18.5 (2Me), 14.1 (Me). Anal. Calcd for C22H34N4O7 (%): C 53.84, H 6.88, N 11.96. Found (%): C 53.60, H 7.20, N 11.19.
N 1,N1′-(1,3-(5-tert-Butyl-2-methoxy)-phenyl)-bis-(N2-(2-hydroxyethyl)oxalamide) 7. A solution of 4 (0.4 g 1.01 mmol) in ethanol (30 ml) and ethanolamine (0.122 ml, 2.02 mmol) was refluxed for 24 h. The solution was evaporated and the resulting solid was washed with cold ethanol (3 ml) and dried to yield 0.205 g (47.7%) of a white solid, mp: 234–237°C. IRν (neat) (cm−1): 3351 (N–H), 1667 (C[double bond, length as m-dash]O). 1H NMR: 9.86 (s, 2H, N7–H), 8.91 (t, 2H, N10–H), 7.88 (s, 2H, Ph), 4.83 (t, 2H, OH), 3.76 (s, 3H O–CH3), 3.50 (t, 4H, OCH2), 3.25 (q, 4H, NCH2), 1.24 (s, 9H, 3CH3). 13C NMR: 160.3 (C9), 158.6 (C8), 147.5 (C2), 140.3 (C5), 130.0 (C1, C3), 116.1 (C4, C6), 59.7 (3CH3), 61.7 (O–Me), 42.7 (C–(CH3)3). Anal. Calcd for C19H28N4O7 (%): C 53.76, H 6.65, N 13.20. Found (%): C 53.73, H 6.71, N 12.78.

Acknowledgements

This work was supported by CONACYT grant 83378, SIP-IPN (Secretaría de Investigación y Postgrado del Instituto Politécnico Nacional), CGIC-UC (Coordinación General de Investigación Científica de la Universidad de Colima) and PROMEP-SEP.

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Footnote

CCDC reference numbers 2795133, 3801211/795129, 4795131, 5801212, 6801213, and 7801214. For crystallographic data in CIF or other electronic format see DOI: 10.1039/c1ce05302g

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