Open Access Article
Bharti
Singh
,
Tao
He
and
Michael J.
Zaworotko
*
Department of Chemical Sciences, Bernal Institute, University of Limerick, V94 T9PX, Republic of Ireland. E-mail: xtal@ul.ie
First published on 9th November 2025
Aliphatic dicarboxylate linker ligands are relatively understudied in the field of coordination networks (CNs) compared to their aromatic counterparts. Herein, we report the synthesis and characterisation of three nickel(II) CNs comprised of mixed ditopic linkers, a linear ditopic imidazolyl ligand and three aliphatic dicarboxylates: [Ni(glu)(bimbz)], sql-glu-Ni, [Ni(adi)(bimbz)(H2O)2], sql-adi-Ni, and [Ni(muc)(bimbz)(H2O)]·H2O, dia-muc-Ni (bimbz = 1,4-bis-(1H-imidazol-1-yl)benzene, glu = glutaric acid, adi = adipic acid, muc = trans, trans-muconic acid). Single crystal X-ray diffraction studies reveal that this family of CNs is comprised from nickel-based octahedral 4-connected nodes linked through nickel-carboxylate and nickel-imidazole coordination bonds. The resulting structures can be described as non-interpenetrated square lattice, sql, (sql-glu-Ni and sql-adi-Ni) or 5-fold interpenetrated diamondoid, dia, (dia-muc-Ni) topology networks. A Cambridge Structural Database (CSD) mining study was conducted to evaluate the effect of node composition and structure on topology in 222 archived CNs of general formula [MLL′], [MLL′(H2O)], [MLL′(H2O)2], [M2L2L′] (= “pillared paddlewheel”) and
(= “double-walled nets”) where L = aliphatic dicarboxylate linker and L′ = linear ditopic N-donor linker. In terms of prevalence, sql, sql, neb, rob and pcu, respectively, were found to be the most common topologies for each of these compositions. These statistics suggest that aliphatic dicarboxylate linkers can have a profound and consistent effect on the resulting topology for certain node compositions. This is especially the case for “pillared paddlewheel” nets, which favour rob topology over the pcu or “DMOF” topology that dominates for rigid linkers.
737 CNs (Conquest version 2025.2.0)14 in the MOF subset15 of the Cambridge Structural Database (CSD),16 the majority of which are classified as potentially porous.
CNs are typically, but not always,17,18 comprised of metal moieties that serve as nodes and linkers that propagate the geometry of the metal or metal cluster. The most commonly employed linkers include rigid N-donors (e.g. 4,4′-bipyridine, 4,4′-bipy19–22), rigid carboxylate donors (e.g., 1,4-benzenedicarboxylate, 1,4-bdc23,24) and rigid mixed N/O-donors (e.g. nicotinate25,26 or isonicotinate27,28). Interestingly, some of these prototypal CNs such as sql topology ELM-1122 and pcu topology nets based upon pillaring of sql topology CNs, e.g. [Cu2(1,4,-bdc)2(4,4-bipy)]29 and DMOF-124 were amongst the first examples of flexible CNs shown to exhibit guest-induced phase transformations, a subject of growing interest with respect to functional properties.30
The topology of a CN provides connectivity without precise geometric and chemical details and can serve as a useful blueprint for crystal engineers to build families of related CNs once a parent CN has been identified.6,31–33 For example, the aforementioned linear ditopic linker ligands and 4-connected nodes are well suited to generate either sql19,20 (square lattice) or dia34 (diamondoid) topology CNs. CSD mining has revealed that extended variants of these parent linker ligands enables ligand substitution to tailor pore structure and properties with retention of topology.7,35 Likewise, as detailed herein, it is feasible to replace a pyridyl moiety with an imidazolyl group, with 1,4-bis(imidazol-1-yl) benzene (bimbz) being an example of such an N-donor linker that can be used on its own36 or as part of a mixed linker ligand system.37 Dicarboxylate linkers also offer diversity and can enable fine-tuning of CN structure and properties38,39 although aliphatic dicarboxylates, which have the potential to enhance flexibility of CNs,40,41 remain understudied compared to their aromatic counterparts (Scheme S1a). A key effect of ligand flexibility is that multiple topologies can exist for the same molecular building blocks, resulting in supramolecular isomers.42 Aliphatic linkers such as glutaric acid (glu) and adipic acid (adi) possess intrinsic conformational flexibility (gauche–gauche, gauche–anti, and anti–anti), while muconic acid (muc) can adopt both cis and trans conformations, offering conformational flexibility in CNs.43 In contrast, aromatic linkers e.g. 1,4-bdc are rigid and do not contribute directly to framework flexibility. For instance, the flexibility observed in MIL-53 (based on 1,4-bdc) arises from the butterfly-type motion of the metal nodes.44 Overall, while aliphatic linkers can enable network flexibility, rigid aromatic linkers can also yield flexible CNs via alternative mechanisms.30
In this study, we report the structures of three CNs prepared from Ni(II), bimbz and three different aliphatic dicarboxylic acids: glutaric acid (H2glu), adipic acid (H2adi) and trans, trans-muconic acid (H2muc) as well as a CSD database mining study of the topologies exhibited by aliphatic dicarboxylate linkers and imidazole-based N-donor linkers and these three acids (H2glu, 24 hits; H2adi, 26 hits; H2muc, 0 hits, Scheme S1a and Table S1). We selected Ni(II) for this study as it more reliably forms monometallic MN2(CO2)2 molecular building blocks compared to later transition metals, which have a greater tendency to exhibit bimetallic structures.
Powder X-ray diffraction (PXRD) experiments were conducted using microcrystalline samples on a PANalytical Empyrean diffractometer equipped with PIXcel3D detector (40 kV; 40 mA; CuKα1,2λ = 1.5418 Å) in Bragg–Brentano geometry. Data were collected with a step size of 0.05 at a count time of 1 s per step over the range 5° < 2θ < 40°. PXRD patterns were also calculated from SCXRD structures using Mercury software. The experimental and calculated PXRD patterns are in good agreement suggested that the bulk samples are in a single phase (Fig. S1). Thermogravimetric analyses were performed under N2 flow using a TA Instruments Q50 system. A sample was loaded into an aluminium sample pan and heated at 5 °C min−1 from room temperature to 500 °C. Fourier Transform Infrared (FTIR) spectra were collected on a PerkinElmer Spectrum 100 spectrometer with Universal ATR accessory from 600 cm−1 to 4000 cm−1 (Fig. S3).
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| Scheme 1 The three CNs isolated herein, all of which have the formula [Ni(L)(bimbz)]n, L = aliphatic dicarboxylate. | ||
. The asymmetric unit contains one crystallographically independent Ni(II), two halves of bimbz ligands and one glu ligand. In sql-glu-Ni, Ni(II) adopts distorted octahedral {NiO4N2} geometry with four oxygens from two carboxylates of two different glu ligands wherein carboxylate groups bind to Ni(II) via the (κ2)-(κ2)-μ2 mode (Scheme S2a). The remaining two coordination sites are occupied by N-donors from bimbz ligands. The bond lengths (Ni–O) and bond angles (∠O–Ni–O) fall within the expected ranges (Table S3).50,51 As shown in Fig. 1a, the distorted octahedra are connected by glu linkers to form 1D chains along the a-axis which are in turn connected by bimbz linkers to form 2D zig-zag sheets with sql topology. These sheets are further connected by nonbonding C–H⋯O interactions (C⋯O, 3.218 Å) between the carboxylate group of a glu in one sheet to an imidazole ring from an adjacent sheet (Fig. 1b). A CSD survey indicates that only two structures are previously reported comprising glu and bimbz: [Cd2(glu)2(bimbz)]52 (CSD refcode, GIRCER), having 2D cadmium-glu sheets pillared by bimbz linkers that form a three-dimensional (3D) architecture; [Zn(glu)(bimbz)]·H2O
53 (CSD refcode, HEWMOP) which is related to sql-glu-Ni.
with a asymmetric unit comprising one crystallographically independent Ni(II), half of adi and bimbz, and one water molecule. The coordination environment of sql-adi-Ni comprises two bimbz ligands coordinated through nitrogen atoms in trans configuration and carboxylates of two adi ligands. The remaining two apical coordination sites are occupied by aqua ligands. In sql-adi-Ni, the carboxylate group of the adi ligand binds in a monodentate manner (κ1)-(κ1)-μ2 (Scheme S2b). The bond lengths (Ni–O) and bond angles (∠O–Ni–O) fall within expected ranges (Table S3).54,55 As shown in Fig. 2a, {NiO4N2} octahedra are linked by adi ligands to from 1D chains, which are cross-linked by bimbz ligands to form 2D sheets with sql topology. These 2D sheets are cross-linked by H-bonding, O–H⋯O (O⋯O, 2.870 Å), between the apical aqua ligands and carboxylate oxygens of adi ligands from an adjacent sheet (Fig. 2b). A CSD analysis revealed only one hit involving adi and bimbz, [Cu(adi)(bimbz)(H2O)2]56 (CSD refcode, PILHUP). PILHUP is structurally related to sql-adi-Ni; both exhibit sql topology but with void volumes of 0% and 21.4% for sql-adi-Ni and PILHUP, respectively (probe radius: 1.2 Å and approx. grid spacing: 0.3 Å).
with an asymmetric unit comprising one crystallographically independent Ni(II), two halves of muc and bimbz ligands, one aqua ligand and one lattice H2O molecule. In dia-muc-Ni, Ni(II) adopted distorted octahedral geometry with two coordination sites occupied by nitrogen atoms from different bimbz ligands and two sites occupied by three carboxylate oxygens of two muc ligands via (κ1)-(κ1)-μ2 and (κ2)-(κ2)-μ2 binding modes (Scheme S2c and d). The remaining coordination sites are occupied by aqua ligands. The bond lengths (Ni–O) and bond angles (∠O–Ni–O) lie within expected ranges (Table S3).57 In dia-muc-Ni, distorted {NiN2O4} octahedra are linked by linear bimbz and muc ligands to form a 3D CN with dia topology and 5-fold interpenetration (Fig. 3b and c). There are no CSD entries involving muc and bimbz.
The phase purity of sql-glu-Ni, sql-adi-Ni and dia-muc-Ni was examined by PXRD and found to be single phase (Fig. S1). We addressed the hydrolytic stability of these solids by exposing powder samples of sql-glu-Ni, sql-adi-Ni and dia-muc-Ni to 75% RH at 40 °C for one week in a humidity chamber. No phase changes were observed (Fig. S1).
where M = divalent metal, L = glu, adi or muc linker and L′ = N-donor linker (imidazolyl or 4-pyridyl linker). Topology determination was conducted using ToposPro58 software. Among the 222 hits in this subset (see Table S1), [MLL′], [M2L2L′] and
were the most commonly observed compositions with 40, 35 and 37 entries, respectively. [MLL′(H2O)] and [MLL′(H2O)2] had 14 and 11 entries, respectively. Specific topologies included dia, pcu, rob, neb, cds, mab, zst (3D) and sql, hcb, hgb (2D) (Fig. 5).
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| Fig. 5 A subset of 222 CNs comprising aliphatic dicarboxylate and N-donor linkers revealed dia, pcu, rob, neb, cds, mab, zst (3D) and sql, hcb, hgb (2D) topology nets. | ||
Fig. 6 details the topology distribution for the five most common node compositions. [MLL′] nodes were found to form sql networks most frequently (20 hits), dia being the second most prevalent topology (13 hits) with cds and hcb topologies also found (Fig. 6). For [MLL′(H2O)], two additional topologies were observed, zst and hgb, but sql remained the most common topology (7 hits). For [MLL′(H2O)2], 3D nets such as neb (most prevalent) and cds were observed along with sql topology. All nets with node compositions [MLL′], [MLL′(H2O)] and [MLL′(H2O)2] comprise 4-connected nodes and mononuclear MBBs. Whereas sql was most commonly found for [MLL′] and [MLL′(H2O)] nodes. sql was also the most commonly observed topology but for [MLL′(H2O)2] the 3D topology neb was found to be prevalent. Analysis of the coordination geometries in the neb structures revealed that the aqua ligands adopt cis-geometry, which would mitigate against sql topology (Fig. 7).
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Fig. 6 Histograms representing statistics of topological distributions present in node compositions [MLL′], [MLL′(H2O)], [MLL′(H2O)2], [M2L2L′], . | ||
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| Fig. 7 The effect of node geometry on resulting topology in [MLL′(H2O)2] (cis-, neb and trans-, sql). | ||
Interestingly, for [M2L2L′] nodes, the 3D rob topology was found to be dominant with 30 of 35 entries; pcu and mab 3D nets were also present. All of the rob entries are comprised of “paddlewheel” MBBs and this raises the issue of why the much more commonly encountered pcu topology is hardly observed in this subset of structures. Our analysis indicates that the conformational flexibility of aliphatic dicarboxylate ligands permits rotation of the paddlewheel nodes, thereby facilitating the formation of rob rather than pcu topology. In contrast, the intrinsic rigidity of aromatic dicarboxylate ligands restricts such rotational freedom, impeding the adoption of the same topology (Fig. 8). 3/35 pcu topology nets can be classified as double-walled pcu (Fig. 6) with the paddlewheel or corner sharing nodes. For example, FIGQUJ59 comprises a paddlewheel whereas TOTTUU60 has a corner-sharing arrangement. 2/35 mab topology nets can be interpreted as a special case of rob topology wherein the length of the rigid linker promotes coordination to the second adjacent node located opposite the paddlewheel node.
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| Fig. 8 Illustration of the spatial arrangements of paddlewheel nodes in [M2L2L′] CNs corresponding to rob and pcu topologies. | ||
is the second most common node composition with 37 refcodes, with all entries exhibiting pcu (23 entries) or sql topology (14 entries) (Fig. 6). All pcu nets are double-walled, with nodes comprised of carboxylate bridged metal centres, either though –O–C–O– (19/24), –O– (edge sharing, 1/24), or both modes simultaneously (3/24), as exemplified by QOHTOX,61 LECBOL62 and TOTTOO60 respectively. The sql-topology refcodes are also double-walled, where the node structure is same as the pcu topology refcodes, metal centres bridged by –O–C–O– or –O– carboxylate moieties, e.g. AYALUH63 or GINWOQ64 and IBOVEE65 or NOWZAD,66 respectively. The node geometry (Fig. 9) is consistent with the formation of double-walled pcu and sql CNs, diverging from more common single-walled variants which predominantly consist of mononuclear [MLL′] and paddlewheel dimer nodes [M2L2L′].
sql-glu-Ni, sql-adi-Ni and dia-muc-Ni are comprised of [MLL′], [MLL′(H2O)2] and [MLL′(H2O)] nodes, respectively. sql-glu-Ni and sql-adi-Ni adopted sql topology as expected based upon their node compositions as this is the most common topology for their respective node compositions. dia-muc-Ni is a rare example of dia topology for the [MLL′(H2O)] node composition, being only the second such example.
Ligand length tends to be more important than flexibility when it comes to enabling interpenetration. Among the analysed 222 CNs (Table S1), interpenetration was observed as follows: 8 glu (12%); 21 adi (51%); 23 muc (88%) (Fig. S4). As expected, the shorter linker, glu, favours non-interpenetrated CNs, whereas muc tends towards interpenetrated structures. These trends align with our results: sql-glu-Ni and sql-adi-Ni are non-interpenetrated; dia-muc-Ni is 5-fold interpenetrated.
Overall, when the structures of sql-glu-Ni, sql-adi-Ni, and dia-muc-Ni are put into the context of our CSD survey, we see a key crystal engineering message: node composition and configuration can critically impact the resulting structures but in a reasonably predictable manner. In the structures reported herein, even though the same synthesis conditions were used to prepare sql-glu-Ni, sql-adi-Ni, and dia-muc-Ni, differing only in the aliphatic acid used, their node compositions, even though all mononuclear, were observed to be different. For the other two compositions typically seen for aliphatic dicarboxylate linkers and N-donor linkers, very different outcomes are to be expected based upon CSD statistics. Specifically, [M2L2L′] and
node topologies, which can presumably be driven by stoichiometry, tend to result in otherwise rare rob single-walled topology networks or “double-walled” pcu or sql topology CNs. Further, for these metal dimer MBBs, the resulting topologies are controlled by the node geometry and/or the undulating nature of the network structure.
Supplementary information is available. See DOI: https://doi.org/10.1039/d5ce00918a.
CCDC 2449933–2449935 contain the supplementary crystallographic data for this paper.67a–c
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