organic compounds
Redetermination of pyridine-4-carbonitrile–chloranilic acid (1/1) at 180 K
aDepartment of Chemistry, Faculty of Science, Okayama University, Okayama 700-8530, Japan
*Correspondence e-mail: ishidah@cc.okayama-u.ac.jp
In the 6H4N2·C6H2Cl2O4, two chloranilic acid (systematic name: 2,5-dichloro-3,6-dihydroxy-1,4-benzoquinone) molecules are connected by O—H⋯O hydrogen bonds to form a dimeric unit. The pyridine-4-carbonitrile molecules are linked on both sides of the dimer via N⋯H⋯O hydrogen bonds to give a centrosymmetric 2:2 complex of pyridine-4-carbonitrile and chloranilic acid. The H atom in the N⋯H⋯O hydrogen bond is disordered over two positions with approximately equal occupancies. The pyridine ring makes a dihedral angle of 61.54 (14)° with the chloranilic acid plane. The 2:2 units are further linked by intermolecular C—H⋯O and C—H⋯Cl hydrogen bonds. This determination presents a siginficantly higher precision than the previously published structure [Tomura & Yamasshita (2008). X-ray Struct. Anal. Online, 24, x31–x32].
of the title compound, CRelated literature
For related structures, see, for example: Gotoh, Asaji & Ishida (2007); Gotoh, Ishikawa & Ishida (2007); Tomura & Yamasshita (2008).
Experimental
Crystal data
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Refinement
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Data collection: PROCESS-AUTO (Rigaku/MSC, 2004); cell PROCESS-AUTO; data reduction: CrystalStructure (Rigaku/MSC, 2004); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997); software used to prepare material for publication: CrystalStructure and PLATON (Spek, 2003).
Supporting information
10.1107/S1600536808017182/lh2639sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536808017182/lh2639Isup2.hkl
Single crystals were obtained by slow evaporation from a methanol solution (30 ml) of chloranilic acid (500 mg) and pyridine-4-carbonitrile (250 mg).
C-bound H atoms were positioned geometrically (C—H = 0.95 Å) and refined as riding, with Uiso(H) = 1.2Ueq(C). The H atom in the O—H···O hydrogen bond was found in a difference Fourier map and refined isotropically (refined distances given in Table 1). The H atom in the N···H···O hydrogen bond was found to be disordered over two positions in a difference Fourier map. The positional parameters of the disordered H atom were refined, with Uiso(H) = 1.2Ueq(N, O) and the site occupancy factors were refined to 0.54 (17) and 0.46 (17).
Data collection: PROCESS-AUTO (Rigaku/MSC, 2004); cell
PROCESS-AUTO (Rigaku/MSC, 2004); data reduction: CrystalStructure (Rigaku/MSC, 2004); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997); software used to prepare material for publication: CrystalStructure (Rigaku/MSC, 2004) and PLATON (Spek, 2003).Fig. 1. The molecular structure of (I), with the atom-labeling. Displacement ellipsoids of non-H atoms are drawn at the 50% probability level. | |
Fig. 2. The structure of the 2:2 unit of (I). The dashed lines indicate O—H···O hydrogen bonds (symmetry codes as Table 1). | |
Fig. 3. A packing diagram of (I), viewed down the b axis. The dotted lines indicate C—H···Cl hydrogen bonds. |
C6H4N2·C6H2Cl2O4 | F(000) = 632.00 |
Mr = 313.10 | Dx = 1.660 Mg m−3 |
Monoclinic, P21/n | Mo Kα radiation, λ = 0.71075 Å |
Hall symbol: -P 2yn | Cell parameters from 7762 reflections |
a = 14.9327 (8) Å | θ = 3.0–30.0° |
b = 4.9301 (3) Å | µ = 0.53 mm−1 |
c = 17.0355 (10) Å | T = 180 K |
β = 93.0474 (18)° | Needle, brown |
V = 1252.37 (13) Å3 | 0.18 × 0.18 × 0.08 mm |
Z = 4 |
Rigaku R-AXIS RAPIDII diffractometer | 2165 reflections with I > 2σ(I) |
Detector resolution: 10.00 pixels mm-1 | Rint = 0.076 |
ω scans | θmax = 30.0° |
Absorption correction: numerical (ABSCOR; Higashi, 1995) | h = −20→20 |
Tmin = 0.900, Tmax = 0.958 | k = −6→6 |
11539 measured reflections | l = −23→22 |
3567 independent reflections |
Refinement on F2 | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.058 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.177 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.07 | w = 1/[σ2(Fo2) + (0.0805P)2] where P = (Fo2 + 2Fc2)/3 |
3567 reflections | (Δ/σ)max = 0.001 |
192 parameters | Δρmax = 0.43 e Å−3 |
0 restraints | Δρmin = −0.73 e Å−3 |
Primary atom site location: structure-invariant direct methods |
C6H4N2·C6H2Cl2O4 | V = 1252.37 (13) Å3 |
Mr = 313.10 | Z = 4 |
Monoclinic, P21/n | Mo Kα radiation |
a = 14.9327 (8) Å | µ = 0.53 mm−1 |
b = 4.9301 (3) Å | T = 180 K |
c = 17.0355 (10) Å | 0.18 × 0.18 × 0.08 mm |
β = 93.0474 (18)° |
Rigaku R-AXIS RAPIDII diffractometer | 3567 independent reflections |
Absorption correction: numerical (ABSCOR; Higashi, 1995) | 2165 reflections with I > 2σ(I) |
Tmin = 0.900, Tmax = 0.958 | Rint = 0.076 |
11539 measured reflections |
R[F2 > 2σ(F2)] = 0.058 | 0 restraints |
wR(F2) = 0.177 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.07 | Δρmax = 0.43 e Å−3 |
3567 reflections | Δρmin = −0.73 e Å−3 |
192 parameters |
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes. |
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger. |
x | y | z | Uiso*/Ueq | Occ. (<1) | |
Cl1 | 0.72657 (5) | 1.21818 (15) | 0.67956 (4) | 0.0293 (2) | |
Cl2 | 0.72206 (5) | 0.30951 (15) | 0.41510 (4) | 0.0317 (2) | |
O1 | 0.57647 (13) | 1.0461 (5) | 0.56722 (13) | 0.0341 (5) | |
O2 | 0.87571 (13) | 0.8329 (4) | 0.64426 (13) | 0.0303 (5) | |
H2 | 0.914 (7) | 0.62 (2) | 0.647 (5) | 0.036* | 0.54 (17) |
O3 | 0.87474 (13) | 0.4764 (5) | 0.52519 (13) | 0.0343 (5) | |
O4 | 0.57459 (14) | 0.6729 (5) | 0.45427 (14) | 0.0316 (5) | |
H4 | 0.540 (3) | 0.781 (8) | 0.466 (2) | 0.048 (13)* | |
N1 | 0.97525 (16) | 0.4095 (6) | 0.67823 (15) | 0.0303 (6) | |
H1 | 0.944 (9) | 0.53 (3) | 0.658 (6) | 0.036* | 0.46 (17) |
N2 | 1.18662 (18) | −0.3815 (6) | 0.78927 (17) | 0.0370 (6) | |
C1 | 0.64869 (18) | 0.9233 (6) | 0.56045 (16) | 0.0256 (6) | |
C2 | 0.72824 (18) | 0.9664 (6) | 0.60781 (16) | 0.0249 (6) | |
C3 | 0.80477 (18) | 0.8142 (6) | 0.60089 (17) | 0.0248 (6) | |
C4 | 0.80495 (18) | 0.5996 (6) | 0.53513 (17) | 0.0254 (6) | |
C5 | 0.72339 (19) | 0.5549 (6) | 0.48720 (16) | 0.0266 (6) | |
C6 | 0.65029 (18) | 0.7065 (6) | 0.49777 (17) | 0.0244 (6) | |
C7 | 0.9672 (2) | 0.3253 (7) | 0.7517 (2) | 0.0354 (7) | |
H7 | 0.9239 | 0.4070 | 0.7831 | 0.043* | |
C8 | 1.0209 (2) | 0.1210 (7) | 0.78260 (18) | 0.0333 (7) | |
H8 | 1.0152 | 0.0599 | 0.8350 | 0.040* | |
C9 | 1.08368 (18) | 0.0063 (6) | 0.73566 (17) | 0.0275 (6) | |
C10 | 1.0914 (2) | 0.0969 (7) | 0.65940 (19) | 0.0372 (8) | |
H10 | 1.1348 | 0.0208 | 0.6271 | 0.045* | |
C11 | 1.0349 (2) | 0.2994 (7) | 0.6313 (2) | 0.0355 (7) | |
H11 | 1.0382 | 0.3613 | 0.5787 | 0.043* | |
C12 | 1.1423 (2) | −0.2083 (6) | 0.76598 (19) | 0.0310 (7) |
U11 | U22 | U33 | U12 | U13 | U23 | |
Cl1 | 0.0338 (4) | 0.0282 (4) | 0.0255 (4) | −0.0001 (3) | −0.0033 (3) | −0.0035 (3) |
Cl2 | 0.0369 (4) | 0.0322 (4) | 0.0257 (4) | 0.0089 (3) | −0.0017 (3) | −0.0053 (3) |
O1 | 0.0287 (10) | 0.0399 (12) | 0.0328 (12) | 0.0106 (10) | −0.0062 (9) | −0.0093 (10) |
O2 | 0.0283 (10) | 0.0288 (11) | 0.0327 (12) | 0.0020 (9) | −0.0080 (9) | 0.0018 (9) |
O3 | 0.0287 (10) | 0.0407 (13) | 0.0333 (12) | 0.0107 (9) | −0.0004 (9) | 0.0012 (10) |
O4 | 0.0242 (10) | 0.0364 (12) | 0.0335 (12) | 0.0074 (9) | −0.0062 (9) | −0.0105 (10) |
N1 | 0.0276 (13) | 0.0333 (14) | 0.0292 (14) | 0.0032 (11) | −0.0055 (10) | 0.0018 (12) |
N2 | 0.0375 (14) | 0.0337 (14) | 0.0398 (16) | 0.0036 (12) | 0.0012 (12) | 0.0039 (13) |
C1 | 0.0263 (13) | 0.0280 (14) | 0.0223 (14) | 0.0038 (12) | 0.0001 (11) | 0.0014 (12) |
C2 | 0.0272 (13) | 0.0264 (14) | 0.0208 (13) | 0.0010 (12) | −0.0011 (10) | −0.0012 (11) |
C3 | 0.0212 (13) | 0.0289 (15) | 0.0239 (14) | −0.0010 (11) | −0.0030 (10) | 0.0045 (12) |
C4 | 0.0285 (14) | 0.0241 (13) | 0.0237 (14) | 0.0044 (11) | 0.0004 (11) | 0.0062 (12) |
C5 | 0.0305 (14) | 0.0282 (14) | 0.0209 (14) | 0.0022 (12) | −0.0004 (11) | −0.0027 (12) |
C6 | 0.0254 (14) | 0.0239 (14) | 0.0233 (14) | 0.0020 (11) | −0.0039 (11) | −0.0003 (11) |
C7 | 0.0345 (16) | 0.0420 (19) | 0.0294 (16) | 0.0084 (14) | −0.0018 (13) | −0.0026 (14) |
C8 | 0.0388 (16) | 0.0361 (16) | 0.0245 (15) | 0.0075 (14) | −0.0023 (12) | 0.0051 (14) |
C9 | 0.0264 (13) | 0.0268 (14) | 0.0286 (15) | −0.0002 (12) | −0.0060 (11) | 0.0001 (12) |
C10 | 0.0332 (16) | 0.0460 (19) | 0.0323 (17) | 0.0089 (15) | 0.0016 (13) | 0.0056 (15) |
C11 | 0.0319 (16) | 0.0425 (19) | 0.0321 (17) | 0.0059 (14) | 0.0006 (13) | 0.0106 (14) |
C12 | 0.0327 (15) | 0.0289 (15) | 0.0309 (17) | −0.0018 (13) | −0.0030 (13) | 0.0011 (13) |
Cl1—C2 | 1.743 (3) | C2—C3 | 1.377 (4) |
Cl2—C5 | 1.723 (3) | C3—C4 | 1.541 (4) |
O1—C1 | 1.247 (3) | C4—C5 | 1.447 (4) |
O2—C3 | 1.262 (3) | C5—C6 | 1.343 (4) |
O2—H2 | 1.20 (14) | C7—C8 | 1.375 (4) |
O3—C4 | 1.226 (3) | C7—H7 | 0.9500 |
O4—C6 | 1.329 (3) | C8—C9 | 1.384 (4) |
O4—H4 | 0.77 (4) | C8—H8 | 0.9500 |
N1—C7 | 1.330 (4) | C9—C10 | 1.384 (4) |
N1—C11 | 1.343 (4) | C9—C12 | 1.451 (4) |
N1—H1 | 0.83 (17) | C10—C11 | 1.376 (4) |
N2—C12 | 1.138 (4) | C10—H10 | 0.9500 |
C1—C2 | 1.416 (4) | C11—H11 | 0.9500 |
C1—C6 | 1.512 (4) | ||
C3—O2—H2 | 110 (4) | C4—C5—Cl2 | 119.1 (2) |
C6—O4—H4 | 110 (3) | O4—C6—C5 | 122.0 (3) |
C7—N1—C11 | 122.0 (3) | O4—C6—C1 | 115.9 (2) |
C7—N1—H2 | 119 (3) | C5—C6—C1 | 122.1 (2) |
C11—N1—H2 | 119 (3) | N1—C7—C8 | 120.6 (3) |
C7—N1—H1 | 123 (6) | N1—C7—H7 | 119.7 |
C11—N1—H1 | 115 (6) | C8—C7—H7 | 119.7 |
O1—C1—C2 | 125.3 (3) | C7—C8—C9 | 118.5 (3) |
O1—C1—C6 | 117.0 (2) | C7—C8—H8 | 120.7 |
C2—C1—C6 | 117.7 (2) | C9—C8—H8 | 120.7 |
C3—C2—C1 | 123.0 (3) | C10—C9—C8 | 120.2 (3) |
C3—C2—Cl1 | 119.4 (2) | C10—C9—C12 | 119.4 (3) |
C1—C2—Cl1 | 117.6 (2) | C8—C9—C12 | 120.4 (3) |
O2—C3—C2 | 125.8 (3) | C11—C10—C9 | 118.7 (3) |
O2—C3—C4 | 116.2 (2) | C11—C10—H10 | 120.6 |
C2—C3—C4 | 118.0 (2) | C9—C10—H10 | 120.6 |
O3—C4—C5 | 122.9 (3) | N1—C11—C10 | 120.0 (3) |
O3—C4—C3 | 118.4 (2) | N1—C11—H11 | 120.0 |
C5—C4—C3 | 118.7 (2) | C10—C11—H11 | 120.0 |
C6—C5—C4 | 120.4 (3) | N2—C12—C9 | 178.2 (3) |
C6—C5—Cl2 | 120.5 (2) | ||
O1—C1—C2—C3 | 176.1 (3) | C4—C5—C6—O4 | 179.3 (3) |
C6—C1—C2—C3 | −2.4 (4) | Cl2—C5—C6—O4 | 0.6 (4) |
O1—C1—C2—Cl1 | −2.0 (4) | C4—C5—C6—C1 | −1.5 (5) |
C6—C1—C2—Cl1 | 179.5 (2) | Cl2—C5—C6—C1 | 179.9 (2) |
C1—C2—C3—O2 | −175.7 (3) | O1—C1—C6—O4 | 1.7 (4) |
Cl1—C2—C3—O2 | 2.4 (4) | C2—C1—C6—O4 | −179.7 (3) |
C1—C2—C3—C4 | 3.8 (4) | O1—C1—C6—C5 | −177.5 (3) |
Cl1—C2—C3—C4 | −178.1 (2) | C2—C1—C6—C5 | 1.1 (4) |
O2—C3—C4—O3 | −5.3 (4) | C11—N1—C7—C8 | 0.5 (5) |
C2—C3—C4—O3 | 175.1 (3) | N1—C7—C8—C9 | 0.3 (5) |
O2—C3—C4—C5 | 175.5 (3) | C7—C8—C9—C10 | −0.1 (5) |
C2—C3—C4—C5 | −4.1 (4) | C7—C8—C9—C12 | 179.5 (3) |
O3—C4—C5—C6 | −176.2 (3) | C8—C9—C10—C11 | −0.8 (5) |
C3—C4—C5—C6 | 3.0 (4) | C12—C9—C10—C11 | 179.6 (3) |
O3—C4—C5—Cl2 | 2.5 (4) | C7—N1—C11—C10 | −1.4 (5) |
C3—C4—C5—Cl2 | −178.4 (2) | C9—C10—C11—N1 | 1.5 (5) |
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2···N1 | 1.20 (10) | 1.47 (10) | 2.610 (3) | 158 (7) |
O4—H4···O1 | 0.78 (4) | 2.21 (4) | 2.661 (3) | 118 (4) |
O4—H4···O1i | 0.78 (4) | 1.99 (4) | 2.656 (3) | 144 (4) |
N1—H1···O2 | 0.83 (12) | 1.80 (13) | 2.610 (3) | 163 (10) |
N1—H1···O3 | 0.83 (12) | 2.45 (10) | 2.957 (3) | 120 (9) |
C7—H7···Cl1ii | 0.95 | 2.82 | 3.722 (3) | 159 |
C8—H8···O4iii | 0.95 | 2.46 | 3.324 (4) | 151 |
C10—H10···Cl2iv | 0.95 | 2.81 | 3.710 (3) | 158 |
C11—H11···O3v | 0.95 | 2.39 | 3.245 (4) | 150 |
Symmetry codes: (i) −x+1, −y+2, −z+1; (ii) −x+3/2, y−1/2, −z+3/2; (iii) x+1/2, −y+1/2, z+1/2; (iv) −x+2, −y, −z+1; (v) −x+2, −y+1, −z+1. |
Experimental details
Crystal data | |
Chemical formula | C6H4N2·C6H2Cl2O4 |
Mr | 313.10 |
Crystal system, space group | Monoclinic, P21/n |
Temperature (K) | 180 |
a, b, c (Å) | 14.9327 (8), 4.9301 (3), 17.0355 (10) |
β (°) | 93.0474 (18) |
V (Å3) | 1252.37 (13) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.53 |
Crystal size (mm) | 0.18 × 0.18 × 0.08 |
Data collection | |
Diffractometer | Rigaku R-AXIS RAPIDII diffractometer |
Absorption correction | Numerical (ABSCOR; Higashi, 1995) |
Tmin, Tmax | 0.900, 0.958 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 11539, 3567, 2165 |
Rint | 0.076 |
(sin θ/λ)max (Å−1) | 0.703 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.058, 0.177, 1.07 |
No. of reflections | 3567 |
No. of parameters | 192 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.43, −0.73 |
Computer programs: PROCESS-AUTO (Rigaku/MSC, 2004), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), ORTEP-3 (Farrugia, 1997), CrystalStructure (Rigaku/MSC, 2004) and PLATON (Spek, 2003).
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2···N1 | 1.20 (10) | 1.47 (10) | 2.610 (3) | 158 (7) |
O4—H4···O1 | 0.78 (4) | 2.21 (4) | 2.661 (3) | 118 (4) |
O4—H4···O1i | 0.78 (4) | 1.99 (4) | 2.656 (3) | 144 (4) |
N1—H1···O2 | 0.83 (12) | 1.80 (13) | 2.610 (3) | 163 (10) |
N1—H1···O3 | 0.83 (12) | 2.45 (10) | 2.957 (3) | 120 (9) |
C7—H7···Cl1ii | 0.95 | 2.82 | 3.722 (3) | 159 |
C8—H8···O4iii | 0.95 | 2.46 | 3.324 (4) | 151 |
C10—H10···Cl2iv | 0.95 | 2.81 | 3.710 (3) | 158 |
C11—H11···O3v | 0.95 | 2.39 | 3.245 (4) | 150 |
Symmetry codes: (i) −x+1, −y+2, −z+1; (ii) −x+3/2, y−1/2, −z+3/2; (iii) x+1/2, −y+1/2, z+1/2; (iv) −x+2, −y, −z+1; (v) −x+2, −y+1, −z+1. |
Acknowledgements
This work was supported by a Grant-in-Aid for Scientific Research (C) (No. 19550018) from the Japanese Society for the Promotion of Science.
References
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This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
The title compound, (I), was prepared in order to extend our study on D—H···A hydrogen bonding (D = N, O, or C; A = N, O or Cl) in amine–chloranilic acid systems (Gotoh, Asaji & Ishida, 2007; Gotoh, Ishikawa & Ishida, 2007). This determination presents a siginficantly higher precision crystal structure than the previously published structure (Tomura & Yamasshita, 2008).
The asymmetric unit in (I) contains one pyridine-4-carbonitrile molecule and one chloranilic acid molecule (Fig. 1). Two chloranilic acid molecules related by an inversion centre are held together by O—H···O hydrogen bonds (Table 1) to form a dimer. The pyridine-4-carbonitrile molecules are linked on both sides of the dimer via N···H···O hydrogen bonds to give a centrosymmetric 2:2 complex of pyridine-4-carbonitrile and chloranilic acid (Fig. 2). The N···O distance is relatively short [2.610 (3) Å] and the H atom in the N···H···O hydrogen bond is disordered over two positions with site occupancies of 0.54 (17) and 0.46 (17). In the 2:2 unit, the pyridine and chloranilic acid planes are twised with a dihedral angle of 61.54 (14)°. The 2:2 units are further linked by C—H···O and C—H···Cl hydrogen bonds (Table 1 and Fig. 3).