Kazuma Gotoh1, Hiroyuki Ishida1. 1. Department of Chemistry, Faculty of Science, Okayama University, Okayama 700-8530, Japan.
Abstract
The crystal structure of the 1:2 dihydrate compound of chloranilic acid (systematic name: 2,5-di-chloro-3,6-dihy-droxy-1,4-benzo-quinone) with 2-carb-oxy-pyridine (another common name: picolinic acid; systematic name: pyridine-2-carb-oxy-lic acid), namely, 2C6H5.5NO20.5+·C6HCl2O4-·2H2O, (I), has been determined at 180 K, and the structure of the 1:2 dihydrate compound of chloranilic acid with 2-carb-oxy-quinoline (another common name: quinaldic acid; systematic name: quinoline-2-carb-oxy-lic acid), namely, 2C10H7NO2·C6H2Cl2O4·2H2O, (II), has been redetermined at 200 K. This determination presents a higher precision crystal structure than the previously published structure [Marfo-Owusu & Thompson (2014 ▸). X-ray Struct. Anal. Online, 30, 55-56]. Compound (I) was analysed as a disordered structure over two states, viz. salt and co-crystal. The salt is bis-(2-carb-oxy-pyridinium) chloranilate dihydrate, 2C6H6NO2+·C6Cl2O42-·2H2O, and the co-crystal is bis-(pyridinium-2-carboxyl-ate) chloranilic acid dihydrate, 2C6H5NO2·C6H2Cl2O4·2H2O, including zwitterionic 2-carb-oxy-pyridine. In both salt and co-crystal, the water mol-ecule links the chloranilic acid and 2-carb-oxy-pyridine mol-ecules through O-H⋯O and N-H⋯O hydrogen bonds. The 2-carb-oxy-pyridine mol-ecules are connected into a head-to-head inversion dimer by a short O-H⋯O hydrogen bond, in which the H atom is disordered over two positions. Compound (II) is a 1:2 dihydrate co-crystal of chloranilic acid and zwitterionic 2-carb-oxy-quinoline. The water mol-ecule links the chloranilic acid and 2-carb-oxy-quinoline mol-ecules through O-H⋯O hydrogen bonds. The 2-carb-oxy-quinoline mol-ecules are connected into a head-to-tail inversion dimer by a pair of N-H⋯O hydrogen bonds.
The crystal structure of the 1:2 dihydratecompound of chloranilic acid (systematic name: 2,5-di-chloro-3,6-dihy-droxy-1,4-benzo-quinone) with 2-carb-oxy-pyridine (another common name: picolinic acid; systematic name: pyridine-2-carb-oxy-lic acid), namely, 2C6H5.5NO20.5+·C6HCl2O4-·2H2O, (I), has been determined at 180 K, and the structure of the 1:2 dihydratecompound of chloranilic acid with 2-carb-oxy-quinoline (another common name: quinaldic acid; systematic name: quinoline-2-carb-oxy-lic acid), namely, 2C10H7NO2·C6H2Cl2O4·2H2O, (II), has been redetermined at 200 K. This determination presents a higher precision crystal structure than the previously published structure [Marfo-Owusu & Thompson (2014 ▸). X-ray Struct. Anal. Online, 30, 55-56]. Compound (I) was analysed as a disordered structure over two states, viz. salt and co-crystal. The salt is bis-(2-carb-oxy-pyridinium) chloranilate dihydrate, 2C6H6NO2+·C6Cl2O42-·2H2O, and the co-crystal is bis-(pyridinium-2-carboxyl-ate) chloranilic acid dihydrate, 2C6H5NO2·C6H2Cl2O4·2H2O, including zwitterionic 2-carb-oxy-pyridine. In both salt and co-crystal, the water mol-ecule links the chloranilic acid and 2-carb-oxy-pyridine mol-ecules through O-H⋯O and N-H⋯O hydrogen bonds. The 2-carb-oxy-pyridine mol-ecules are connected into a head-to-head inversion dimer by a short O-H⋯O hydrogen bond, in which the H atom is disordered over two positions. Compound (II) is a 1:2 dihydrateco-crystal of chloranilic acid and zwitterionic 2-carb-oxy-quinoline. The water mol-ecule links the chloranilic acid and 2-carb-oxy-quinoline mol-ecules through O-H⋯O hydrogen bonds. The 2-carb-oxy-quinoline mol-ecules are connected into a head-to-tail inversion dimer by a pair of N-H⋯O hydrogen bonds.
Chloranilic acid, a dibasic acid with hydrogen-bond donor as well as acceptor groups, appears particularly attractive as a template for generating tightly bound self-assemblies with various pyridine derivatives as well as being a model compound for investigating hydrogen-transfer motions in O—H⋯N and N—H⋯O hydrogen-bond systems (Zaman et al., 2004 ▸; Molčanov & Kojić-Prodić, 2010 ▸; Seliger et al., 2009 ▸; Asaji et al. 2010 ▸). Previously, we have prepared three 1:1 compounds of chloranilic acid with 2-, 3- and 4-carboxypyridine and analysed the crystal structures in order to extend our study on D—H⋯A hydrogen bonding (D = N, O or C; A = N, O or Cl) in chloranilic acid–substituted pyridine systems (Gotoh et al., 2006 ▸, 2009 ▸; Tabuchi et al., 2005 ▸). In the present study, we have prepared a 1:2 compound of chloranilic acid with 2-carboxypyridine and also redetermined the structure of a 1:2 compound of chloranilic acid with 2-carboxyquinoline with higher precision than previously reported structure [Marfo-Owusu & Thompson, 2014 ▸; although the title and text in this reference refer to the 1:1 adduct of chloranilic acid with 2-carboxyqulinone, the reported structure is the 1:2 compound, the same as the present compound (II)]. The crystal structure of the anhydrous 1:2 compound of chloranilic acid with 2-carboxyquinoline was also reported by Marfo-Owusu & Thompson (2016 ▸).
Structural commentary
Compound (I) (Fig. 1 ▸) crystallizes with one-half of a chloranilic acid molecule, which is located on an inversion centre, one 2-carboxypyridine molecule and one water molecule in the asymmetric unit. In the crystal, the water molecule is disordered over two sites with equal occupancies of 0.5. The occupancies of the H atoms in the chloranilic acid molecule and the carboxy group of the 2-carboxypyridine molecule are also 0.5. The compound is, therefore, considered to be a disordered state over two forms, viz. bis(2-carboxypyridinium) chloranilate dihydrate, (A), and bis(pyridinium-2-carboxylate) chloranilic aciddihydrate, (B), as shown in the scheme and Fig. 2 ▸. In form (A), the water molecule acts as one N—H⋯O hydrogen-bond acceptor and two O—H⋯O hydrogen-bond donors (N1—H1⋯O5A, O5A—O9A⋯O4ii and O5A—H10A⋯O2; symmetry code as in Table 1 ▸), while in form (B), the water molecule acts as the acceptor of N—H⋯O and O—H⋯O hydrogen bonds, and as two O—H⋯O hydrogen-bond donors (N1—H1⋯O5B, O2—H2⋯O5B, O5B—H9B⋯O4ii and O5B—H10B⋯O1iii; Table 1 ▸). The dihedral angle between the pyridine ring and the carboxy plane in the base molecule is 23.32 (15)°.
Figure 1
The molecular structure of compound (I), showing the atom-numbering scheme. Displacement ellipsoids of non-H atoms are drawn at the 50% probability level and H atoms are drawn as small spheres of arbitrary radii. The water molecule is disordered over two sites with equally occupancies. Atoms H2 and H3 have site-occupancy factors of 0.5. [Symmetry code: (iv) −x + 1, −y + 1, −z + 1.]
Figure 2
A partial packing diagram of compound (I) around the disordered water molecule in bis(2-carboxypyridinium) chloranilate dihydrate (A) and bis(pyridinium-2-carboxylate) chloranilic acid dihydrate (B), showing O—H⋯O and N—H⋯O hydrogen bonds (dashed lines). [Symmetry codes: (ii) −x, −y, −z + 1; (iii) −x + 1, −y, −z + 1.]
Table 1
Hydrogen-bond geometry (Å, °) for (I)
D—H⋯A
D—H
H⋯A
D⋯A
D—H⋯A
N1—H1⋯O5A
0.895 (17)
1.843 (17)
2.7380 (19)
179 (2)
N1—H1⋯O5B
0.895 (17)
1.907 (17)
2.7417 (18)
154 (2)
O2—H2⋯O5B
0.83 (3)
2.12 (3)
2.8111 (19)
141 (3)
O3—H3⋯O3i
0.82 (3)
1.62 (4)
2.4352 (14)
174 (4)
O5A—H9A⋯O4ii
0.82 (3)
2.11 (3)
2.927 (2)
170 (3)
O5B—H9B⋯O4ii
0.82 (3)
2.02 (3)
2.8159 (19)
162 (3)
O5A—H10A⋯O2
0.84 (3)
1.90 (3)
2.6762 (19)
154 (4)
O5B—H10B⋯O1iii
0.85 (2)
2.60 (3)
3.095 (2)
119 (2)
C8—H8⋯Cl1iii
0.95
2.78
3.6524 (12)
154
C8—H8⋯O1iii
0.95
2.47
3.1871 (14)
132
Symmetry codes: (i) ; (ii) ; (iii) .
The asymmetric unit of compound (II) consists of one-half of a chloranilic acid molecule, which is located on an inversion centre, one 2-carboxyquinoline molecule and one water molecule. In the crystal, the 2-carboxyquinoline molecule is in a twitterionic form and no acid–base interaction involving H-atom transfer between chloranilic acid and 2-carboxyquinoline is observed (Fig. 3 ▸). The dihedral angle between the quinoline ring system and the carboxylate plane in the base molecule is 20.84 (19)°. The water molecule acts as an O—H⋯O hydrogen-bonding bridge between the chloranilic and 2-carboxyquinoline molecules (O2—H2⋯O5 and O5—H3⋯O4; Table 2 ▸).
Figure 3
The molecular structure of compound (II), showing the atom-numbering scheme. Displacement ellipsoids of non-H atoms are drawn at the 50% probability level and H atoms are drawn as small spheres of arbitrary radii. O—H⋯O hydrogen bonds are shown as dashed lines. [Symmetry code: (v) −x, −y, −z.]
Table 2
Hydrogen-bond geometry (Å, °) for (II)
D—H⋯A
D—H
H⋯A
D⋯A
D—H⋯A
N1—H1⋯O3i
0.88 (2)
1.91 (2)
2.7724 (17)
167 (2)
O2—H2⋯O5
0.98 (3)
1.59 (3)
2.5092 (17)
155 (3)
O5—H3⋯O4
0.82 (2)
2.01 (2)
2.8072 (19)
164 (2)
O5—H4⋯O4ii
0.85 (2)
1.82 (2)
2.6632 (19)
171 (2)
C6—H6⋯O1iii
0.95
2.54
3.392 (2)
150
C6—H6⋯O5iv
0.95
2.47
3.211 (2)
134
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .
Supramolecular features
In the crystal of compound (I), the 2-carboxypyridine molecules, which are related by an inversion centre, are linked into a head-to-head dimer via a short O—H⋯O hydrogen bond, in which the H atom is disordered over two sites (O3—H3⋯O3i; Table 1 ▸), as observed in pyridinium-2-carboxylic acid pyridinium-2-carboxylate perchlorate (Wang et al., 2015 ▸). The three components are linked via the above-mentioned O—H⋯O and N—H⋯O hydrogen bonds together with weak C—H⋯Cl and C—H⋯O hydrogen bonds (C8—H8⋯Cl1iii and C8—H8⋯O1iii; Table 1 ▸), forming a layer parallel to the ab plane (Fig. 4 ▸). In the layer, the chloranilic acid rings are stacked along the b axis through a π–π interaction [centroid–centroid distance = 3.6851 (7) Å and interplanar spacing = 3.2118 (4) Å]. The pyridine rings are also stacked along the b axis through a π–π interaction [centroid–centroid distance = 3.6851 (7) Å and interplanar spacing = 3.4787 (5) Å]. Between the layers, a short Cl⋯Cl contact is observed [Cl1⋯Cl1v = 3.3717 (5) Å; symmetry code: (v) −x + 1, y − , −z + ].
Figure 4
A packing diagram of compound (I) viewed along the b axis, showing the layer structure. O—H⋯O and N—H⋯O hydrogen bonds are shown as dashed lines.
In the crystal of (II), two adjacent 2-carboxyquinoline molecules, which are related by an inversion centre, form a head-to-tail dimer via a pair of N—H⋯O hydrogen bonds (N—H1⋯O3i; symmetry code as in Table 2 ▸). The dimers are stacked in a column along the a axis through a weak π–π interaction between the N1/C4–C7/C12 and C7–C12 rings with a centroid–centroid distance of 3.9184 (10) Å. The water molecule links the stacked base molecules related by translation along a via O—H⋯O hydrogen bonds [O5—H3⋯O4 and O5—H4⋯O4ii; Table 2 ▸] and also links the acid molecule and the two base molecules via O—H⋯O hydrogen bonds, forming a layer structure parallel to (01) as shown in Fig. 5 ▸. No significant short contact between the acid molecules in the layer is observed. Between the layers, a bifurcated C—H⋯(O, O) hydrogen bond (C6—H6⋯O1iii and C6—H6⋯O5iv; Table 2 ▸) is observed, through which the 2-carboxyquinoline molecule is weakly linked with the chloranilic acid and water molecules.
Figure 5
A packing diagram of compound (II) viewed along the a axis, showing the layer structure formed by O—H⋯O and N—H⋯O hydrogen bonds (dashed lines).
Database survey
A search of the Cambridge Structural Database (Version 5.38, last update May 2017; Groom et al., 2016 ▸) for organicco-crystals of pyridinium-2-carboxylate (twitterionic form) gave six structures. For organicco-crystals of quinolinium-2-carboxylate (twitterionic form), eight structures were found.
Synthesis and crystallization
Single crystals of compound (I) were obtained by slow evaporation of an acetonitrile solution (200 ml) of chloranilic acid (250 mg) with 2-carboxypridine (310 mg) at room temperature. Single crystals of compound (II) were obtained by slow evaporation from a methanol solution (150 ml) of chloranilic acid (310 mg) with 2-carboxyquinoline (520 mg) at room temperature.
Refinement
Crystal data, data collection and structure refinement details are summarized in Table 3 ▸. The water molecule in compound (I) was found to be disordered over two sites in a difference-Fourier map. The occupancies were refined to 0.52 (2) and 0.48 (2) and then they were fixed at 0.5. The H atom in the carboxy group of the base molecule was also found in a difference-Fourier map to be disordered between the adjacent carboxy groups, which are related by an inversion centre, and the occupancy was set to be 0.5. Since the N-bound H atom refined reasonably with an occupancy of 1, the occupancy of the H atom of the acid molecule was set to be 0.5 to balance the total charge of the compound. All other H atoms were found in a difference-Fourier map. The N-bound H atom was refined freely, while the positions of O-bound H atoms were refined, with O—H = 0.84 (2) Å and U
iso(H) = 1.5U
eq(O). For the water H atoms, distant restraints of H⋯H = 1.37 (4) Å were also applied. C-bound H atoms were positioned geometrically (C—H = 0.95 Å) and were treated as riding with U
iso(H) = 1.2U
eq(C).
Table 3
Experimental details
(I)
(II)
Crystal data
Chemical formula
2C6H5.5NO20.5+·C6HCl2O4−·2H2O
2C10H7NO2·C6H2Cl2O4·2H2O
Mr
491.24
591.36
Crystal system, space group
Monoclinic, P21/c
Triclinic, P
Temperature (K)
180
200
a, b, c (Å)
15.1028 (10), 3.6851 (3), 17.5689 (13)
4.4745 (2), 10.5448 (8), 13.6111 (6)
α, β, γ (°)
90, 101.871 (3), 90
96.652 (4), 94.109 (3), 99.009 (4)
V (Å3)
956.89 (12)
627.38 (6)
Z
2
1
Radiation type
Mo Kα
Mo Kα
μ (mm−1)
0.40
0.32
Crystal size (mm)
0.35 × 0.18 × 0.13
0.41 × 0.21 × 0.03
Data collection
Diffractometer
Rigaku R-AXIS RAPIDII
Rigaku R-AXIS RAPIDII
Absorption correction
Numerical (NUMABS; Higashi, 1999 ▸)
Numerical (NUMABS; Higashi, 1999 ▸)
Tmin, Tmax
0.896, 0.949
0.925, 0.990
No. of measured, independent and observed [I > 2σ(I)] reflections
17752, 2789, 2537
12358, 3666, 2755
Rint
0.021
0.122
(sin θ/λ)max (Å−1)
0.704
0.704
Refinement
R[F2 > 2σ(F2)], wR(F2), S
0.030, 0.079, 1.11
0.052, 0.149, 1.01
No. of reflections
2789
3666
No. of parameters
176
197
No. of restraints
8
2
H-atom treatment
H atoms treated by a mixture of independent and constrained refinement
H atoms treated by a mixture of independent and constrained refinement
Δρmax, Δρmin (e Å−3)
0.54, −0.24
0.52, −0.45
Computer programs: RAPID-AUTO (Rigaku, 2006 ▸), SHELXS97 (Sheldrick, 2008 ▸), SHELXL2016 (Sheldrick, 2015 ▸), ORTEP-3 for Windows (Farrugia, 2012 ▸), CrystalStructure (Rigaku, 2010 ▸) and PLATON (Spek, 2015 ▸).
All H atoms in compound (II) were found in a difference-Fourier map. The O- and N-bound H atoms in the acid and base molecules were refined freely. The water H atoms were refined with O—H = 0.84 (2) Å. C-bound H atoms were positioned geometrically (C—H = 0.95 Å) and were treated as riding with U
iso(H) = 1.2U
eq(C).Crystal structure: contains datablock(s) General, I, II. DOI: 10.1107/S2056989017015997/lh5860sup1.cifStructure factors: contains datablock(s) I. DOI: 10.1107/S2056989017015997/lh5860Isup2.hklStructure factors: contains datablock(s) II. DOI: 10.1107/S2056989017015997/lh5860IIsup3.hklClick here for additional data file.Supporting information file. DOI: 10.1107/S2056989017015997/lh5860IIsup4.cmlCCDC references: 1583721, 1583720Additional supporting information: crystallographic information; 3D view; checkCIF report
Secondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.030
Hydrogen site location: difference Fourier map
wR(F2) = 0.079
H atoms treated by a mixture of independent and constrained refinement
S = 1.11
w = 1/[σ2(Fo2) + (0.0445P)2 + 0.3065P] where P = (Fo2 + 2Fc2)/3
2789 reflections
(Δ/σ)max = 0.001
176 parameters
Δρmax = 0.54 e Å−3
8 restraints
Δρmin = −0.24 e Å−3
Primary atom site location: structure-invariant direct methods
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes)
are estimated using the full covariance matrix. The cell esds are taken
into account individually in the estimation of esds in distances, angles
and torsion angles; correlations between esds in cell parameters are only
used when they are defined by crystal symmetry. An approximate (isotropic)
treatment of cell esds is used for estimating esds involving l.s. planes.
Secondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.052
Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.149
H atoms treated by a mixture of independent and constrained refinement
S = 1.00
w = 1/[σ2(Fo2) + (0.0879P)2] where P = (Fo2 + 2Fc2)/3
3666 reflections
(Δ/σ)max < 0.001
197 parameters
Δρmax = 0.52 e Å−3
2 restraints
Δρmin = −0.45 e Å−3
Primary atom site location: structure-invariant direct methods
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes)
are estimated using the full covariance matrix. The cell esds are taken
into account individually in the estimation of esds in distances, angles
and torsion angles; correlations between esds in cell parameters are only
used when they are defined by crystal symmetry. An approximate (isotropic)
treatment of cell esds is used for estimating esds involving l.s. planes.