organic compounds
A cocrystal of pyridine-2,4-dicarboxylic acid and serine
aCollege of Chemical Engineering & Materials Science, Liaodong University, Dandong 118003, People's Republic of China
*Correspondence e-mail: liangpenglong@163.com
The title compound, pyridine-2,4-dicarboxylic acid–S-serine (1/1), C7H5NO4·C3H7NO3, has serine in its zwitterionic form. The is stabilized by an extensive series of intermolecular O—H⋯O, N—H⋯N and N—H⋯O hydrogen bonds, forming a three-dimensional network.
Related literature
For related structures of organic acids and amino acids, see: Coupar et al. (1997); Pandiarajan et al. (2001); Sobczyk et al. (2000); Srinivasan et al. (2002).
Experimental
Crystal data
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Refinement
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Data collection: SMART (Bruker, 1998); cell SAINT (Bruker, 1998); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: SHELXTL (Bruker, 1998); software used to prepare material for publication: SHELXTL.
Supporting information
https://doi.org/10.1107/S160053680706240X/sj2422sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S160053680706240X/sj2422Isup2.hkl
The compound was crystallized by slow evaporation of an equimolar solution of pyridine-2,4-dicarboxylic acid and serine in a solution of ethanol/water (1:1, v/v).
In the absence of significant
effects, Friedel pairs were averaged. The H2A, H2B, and H2C atoms of the serine NH3 group were located from a difference Fourier map and refined isotropically, with N–H distances restrained to 0.90 (1) Å, H···H distances restrained to 1.43 (2) Å, and with Uiso(H) values fixed at 0.08 Å2. The other H atoms were placed in idealized positions and constrained to ride on their parent atoms with C–H distances in the range 0.93–0.98 Å, O–H distances of 0.82 Å, and with Uiso(H) set at 1.2Ueq(C) and 1.5Ueq(O).The interactions of organic acids with amino acids in the solid state have been widely investigated due to their interesting hydrogen-bonding interactions (Coupar et al., 1997; Sobczyk et al., 2000; Pandiarajan et al., 2001; Srinivasan et al., 2002). We report here the structure of the title
(I), Fig.1, formed from pyridine-2,4-dicarboxylic acid and serine in its zwitterionic form.The crystal is stabilized by an extensive array of intermolecular O–H···O, N–H···N, and N–H···O hydrogen bonds (Table 1), forming a three-dimensional network (Fig. 2).
For related structures of organic acids and amino acids, see: Coupar et al. (1997); Pandiarajan et al. (2001); Sobczyk et al. (2000); Srinivasan et al. (2002).
Data collection: SMART (Bruker, 1998); cell
SAINT (Bruker, 1998); data reduction: SAINT (Bruker, 1998); program(s) used to solve structure: SHELXS97 (Sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: SHELXTL (Bruker, 1998); software used to prepare material for publication: SHELXTL (Bruker, 1998).Fig. 1. The asymmetric unit of the compound, showing 30% probability displacement and the atom-numbering scheme. | |
Fig. 2. The molecular packing of the compound. Intermolecular hydrogen bonds are shown as dashed lines. |
C7H5NO4·C3H7NO3 | Z = 1 |
Mr = 272.22 | F(000) = 142 |
Triclinic, P1 | Dx = 1.563 Mg m−3 |
Hall symbol: P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 4.4941 (13) Å | Cell parameters from 1233 reflections |
b = 6.4512 (18) Å | θ = 2.7–27.8° |
c = 10.123 (3) Å | µ = 0.14 mm−1 |
α = 81.273 (3)° | T = 298 K |
β = 87.060 (3)° | Block, colorless |
γ = 86.247 (3)° | 0.37 × 0.33 × 0.30 mm |
V = 289.22 (14) Å3 |
Bruker SMART CCD area-detector diffractometer | 1287 independent reflections |
Radiation source: fine-focus sealed tube | 1202 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.021 |
ω scans | θmax = 27.5°, θmin = 2.0° |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | h = −5→5 |
Tmin = 0.952, Tmax = 0.961 | k = −8→8 |
2493 measured reflections | l = −13→13 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.036 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.090 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | w = 1/[σ2(Fo2) + (0.0577P)2 + 0.006P] where P = (Fo2 + 2Fc2)/3 |
1287 reflections | (Δ/σ)max < 0.001 |
184 parameters | Δρmax = 0.24 e Å−3 |
9 restraints | Δρmin = −0.25 e Å−3 |
C7H5NO4·C3H7NO3 | γ = 86.247 (3)° |
Mr = 272.22 | V = 289.22 (14) Å3 |
Triclinic, P1 | Z = 1 |
a = 4.4941 (13) Å | Mo Kα radiation |
b = 6.4512 (18) Å | µ = 0.14 mm−1 |
c = 10.123 (3) Å | T = 298 K |
α = 81.273 (3)° | 0.37 × 0.33 × 0.30 mm |
β = 87.060 (3)° |
Bruker SMART CCD area-detector diffractometer | 1287 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | 1202 reflections with I > 2σ(I) |
Tmin = 0.952, Tmax = 0.961 | Rint = 0.021 |
2493 measured reflections |
R[F2 > 2σ(F2)] = 0.036 | 9 restraints |
wR(F2) = 0.090 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | Δρmax = 0.24 e Å−3 |
1287 reflections | Δρmin = −0.25 e Å−3 |
184 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 | ||
O1 | 1.0517 (4) | 0.0560 (3) | 0.0626 (2) | 0.0334 (5) | |
H1 | 1.1822 | −0.0201 | 0.0317 | 0.050* | |
O2 | 0.9510 (4) | −0.2405 (3) | 0.1977 (2) | 0.0356 (5) | |
O3 | 0.1493 (6) | −0.2074 (3) | 0.5583 (2) | 0.0516 (7) | |
O4 | −0.0519 (5) | 0.1089 (3) | 0.5859 (2) | 0.0434 (6) | |
H4 | −0.1431 | 0.0430 | 0.6491 | 0.065* | |
O5 | 0.4623 (4) | 0.7963 (3) | 0.9831 (2) | 0.0337 (5) | |
O6 | 0.5883 (5) | 0.9761 (3) | 0.7854 (2) | 0.0359 (5) | |
O7 | 0.4881 (4) | 0.3780 (3) | 0.8451 (2) | 0.0377 (5) | |
H7 | 0.4986 | 0.2569 | 0.8290 | 0.057* | |
N1 | 0.6382 (5) | 0.2780 (3) | 0.1903 (2) | 0.0293 (5) | |
N2 | 0.9518 (5) | 0.5231 (3) | 0.9729 (2) | 0.0269 (5) | |
C1 | 0.6767 (6) | 0.0717 (4) | 0.2350 (3) | 0.0249 (5) | |
C2 | 0.5179 (6) | −0.0277 (4) | 0.3443 (3) | 0.0271 (5) | |
H2 | 0.5490 | −0.1714 | 0.3717 | 0.033* | |
C3 | 0.3112 (6) | 0.0908 (4) | 0.4122 (3) | 0.0270 (5) | |
C4 | 0.2762 (6) | 0.3039 (4) | 0.3694 (3) | 0.0327 (6) | |
H4A | 0.1446 | 0.3884 | 0.4148 | 0.039* | |
C5 | 0.4416 (6) | 0.3894 (4) | 0.2573 (3) | 0.0333 (6) | |
H5 | 0.4132 | 0.5326 | 0.2274 | 0.040* | |
C6 | 0.9072 (6) | −0.0535 (4) | 0.1629 (3) | 0.0261 (5) | |
C7 | 0.1307 (6) | −0.0215 (4) | 0.5278 (3) | 0.0320 (6) | |
C8 | 0.6098 (5) | 0.8204 (4) | 0.8753 (3) | 0.0236 (5) | |
C9 | 0.8388 (5) | 0.6435 (4) | 0.8475 (3) | 0.0253 (5) | |
H9 | 1.0081 | 0.7073 | 0.7955 | 0.030* | |
C10 | 0.7075 (6) | 0.4937 (4) | 0.7658 (3) | 0.0329 (6) | |
H10A | 0.6184 | 0.5730 | 0.6870 | 0.039* | |
H10B | 0.8645 | 0.3982 | 0.7367 | 0.039* | |
H2A | 0.826 (7) | 0.433 (5) | 1.017 (4) | 0.080* | |
H2B | 1.120 (5) | 0.448 (5) | 0.955 (4) | 0.080* | |
H2C | 0.998 (9) | 0.607 (6) | 1.031 (4) | 0.080* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.0327 (10) | 0.0268 (10) | 0.0373 (11) | 0.0043 (8) | 0.0169 (8) | −0.0029 (8) |
O2 | 0.0397 (11) | 0.0250 (10) | 0.0390 (11) | 0.0046 (8) | 0.0125 (8) | −0.0022 (8) |
O3 | 0.0690 (16) | 0.0327 (12) | 0.0461 (14) | 0.0018 (10) | 0.0271 (12) | 0.0043 (10) |
O4 | 0.0507 (13) | 0.0357 (12) | 0.0398 (12) | 0.0011 (9) | 0.0226 (10) | −0.0022 (10) |
O5 | 0.0320 (10) | 0.0297 (10) | 0.0364 (11) | 0.0046 (7) | 0.0156 (8) | −0.0036 (8) |
O6 | 0.0460 (11) | 0.0237 (10) | 0.0335 (10) | 0.0063 (8) | 0.0135 (8) | 0.0015 (8) |
O7 | 0.0352 (11) | 0.0269 (10) | 0.0526 (13) | −0.0027 (8) | 0.0124 (9) | −0.0153 (9) |
N1 | 0.0300 (12) | 0.0222 (11) | 0.0337 (12) | 0.0017 (9) | 0.0082 (9) | −0.0023 (9) |
N2 | 0.0275 (11) | 0.0197 (11) | 0.0317 (11) | 0.0013 (8) | 0.0099 (9) | −0.0024 (8) |
C1 | 0.0227 (11) | 0.0253 (12) | 0.0262 (12) | 0.0008 (9) | 0.0023 (10) | −0.0043 (10) |
C2 | 0.0315 (13) | 0.0224 (12) | 0.0259 (12) | 0.0014 (9) | 0.0043 (10) | −0.0015 (10) |
C3 | 0.0272 (13) | 0.0301 (13) | 0.0234 (12) | −0.0022 (10) | 0.0034 (10) | −0.0041 (10) |
C4 | 0.0319 (14) | 0.0282 (14) | 0.0359 (14) | 0.0054 (11) | 0.0112 (12) | −0.0056 (12) |
C5 | 0.0363 (15) | 0.0224 (13) | 0.0390 (15) | 0.0027 (11) | 0.0090 (12) | −0.0031 (11) |
C6 | 0.0255 (12) | 0.0243 (13) | 0.0282 (14) | 0.0005 (10) | 0.0053 (10) | −0.0058 (10) |
C7 | 0.0346 (15) | 0.0335 (16) | 0.0254 (14) | 0.0007 (12) | 0.0087 (11) | −0.0014 (11) |
C8 | 0.0239 (11) | 0.0189 (11) | 0.0280 (12) | −0.0015 (8) | 0.0049 (10) | −0.0050 (9) |
C9 | 0.0243 (12) | 0.0229 (12) | 0.0261 (12) | 0.0019 (9) | 0.0122 (10) | −0.0009 (9) |
C10 | 0.0372 (14) | 0.0279 (14) | 0.0341 (14) | 0.0000 (11) | 0.0089 (11) | −0.0104 (11) |
O1—C6 | 1.315 (3) | N2—H2C | 0.90 (4) |
O1—H1 | 0.8200 | C1—C2 | 1.381 (3) |
O2—C6 | 1.211 (3) | C1—C6 | 1.500 (3) |
O3—C7 | 1.191 (4) | C2—C3 | 1.386 (3) |
O4—C7 | 1.318 (4) | C2—H2 | 0.9300 |
O4—H4 | 0.8200 | C3—C4 | 1.378 (4) |
O5—C8 | 1.242 (3) | C3—C7 | 1.508 (4) |
O6—C8 | 1.251 (3) | C4—C5 | 1.386 (4) |
O7—C10 | 1.417 (3) | C4—H4A | 0.9300 |
O7—H7 | 0.8200 | C5—H5 | 0.9300 |
N1—C5 | 1.327 (4) | C8—C9 | 1.535 (3) |
N1—C1 | 1.342 (3) | C9—C10 | 1.528 (4) |
N2—C9 | 1.479 (3) | C9—H9 | 0.9800 |
N2—H2A | 0.89 (3) | C10—H10A | 0.9700 |
N2—H2B | 0.90 (3) | C10—H10B | 0.9700 |
C6—O1—H1 | 109.5 | N1—C5—H5 | 118.2 |
C7—O4—H4 | 109.5 | C4—C5—H5 | 118.2 |
C10—O7—H7 | 109.5 | O2—C6—O1 | 124.4 (2) |
C5—N1—C1 | 117.4 (2) | O2—C6—C1 | 120.9 (2) |
C9—N2—H2A | 115 (3) | O1—C6—C1 | 114.7 (2) |
C9—N2—H2B | 110 (3) | O3—C7—O4 | 125.2 (3) |
H2A—N2—H2B | 107 (2) | O3—C7—C3 | 122.6 (3) |
C9—N2—H2C | 112 (3) | O4—C7—C3 | 112.2 (2) |
H2A—N2—H2C | 106 (2) | O5—C8—O6 | 126.1 (2) |
H2B—N2—H2C | 107 (2) | O5—C8—C9 | 117.8 (2) |
N1—C1—C2 | 123.1 (2) | O6—C8—C9 | 116.2 (2) |
N1—C1—C6 | 117.7 (2) | N2—C9—C10 | 109.4 (2) |
C2—C1—C6 | 119.3 (2) | N2—C9—C8 | 111.60 (19) |
C1—C2—C3 | 118.7 (2) | C10—C9—C8 | 111.4 (2) |
C1—C2—H2 | 120.6 | N2—C9—H9 | 108.1 |
C3—C2—H2 | 120.6 | C10—C9—H9 | 108.1 |
C4—C3—C2 | 118.7 (2) | C8—C9—H9 | 108.1 |
C4—C3—C7 | 123.3 (2) | O7—C10—C9 | 109.5 (2) |
C2—C3—C7 | 118.1 (2) | O7—C10—H10A | 109.8 |
C3—C4—C5 | 118.6 (2) | C9—C10—H10A | 109.8 |
C3—C4—H4A | 120.7 | O7—C10—H10B | 109.8 |
C5—C4—H4A | 120.7 | C9—C10—H10B | 109.8 |
N1—C5—C4 | 123.6 (2) | H10A—C10—H10B | 108.2 |
D—H···A | D—H | H···A | D···A | D—H···A |
O1—H1···O5i | 0.82 | 1.77 | 2.590 (3) | 173 |
O4—H4···O6ii | 0.82 | 1.81 | 2.598 (3) | 162 |
O7—H7···O6iii | 0.82 | 1.94 | 2.754 (3) | 171 |
N2—H2A···N1iv | 0.89 (3) | 2.05 (2) | 2.872 (3) | 152 (4) |
N2—H2A···O1iv | 0.89 (3) | 2.55 (4) | 3.023 (3) | 113 (3) |
N2—H2B···O7v | 0.90 (3) | 2.01 (2) | 2.848 (3) | 155 (4) |
N2—H2C···O2vi | 0.90 (4) | 2.07 (4) | 2.925 (3) | 158 (4) |
N2—H2C···O5v | 0.90 (4) | 2.48 (4) | 2.998 (3) | 117 (3) |
Symmetry codes: (i) x+1, y−1, z−1; (ii) x−1, y−1, z; (iii) x, y−1, z; (iv) x, y, z+1; (v) x+1, y, z; (vi) x, y+1, z+1. |
Experimental details
Crystal data | |
Chemical formula | C7H5NO4·C3H7NO3 |
Mr | 272.22 |
Crystal system, space group | Triclinic, P1 |
Temperature (K) | 298 |
a, b, c (Å) | 4.4941 (13), 6.4512 (18), 10.123 (3) |
α, β, γ (°) | 81.273 (3), 87.060 (3), 86.247 (3) |
V (Å3) | 289.22 (14) |
Z | 1 |
Radiation type | Mo Kα |
µ (mm−1) | 0.14 |
Crystal size (mm) | 0.37 × 0.33 × 0.30 |
Data collection | |
Diffractometer | Bruker SMART CCD area-detector |
Absorption correction | Multi-scan (SADABS; Sheldrick, 1996) |
Tmin, Tmax | 0.952, 0.961 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 2493, 1287, 1202 |
Rint | 0.021 |
(sin θ/λ)max (Å−1) | 0.650 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.036, 0.090, 1.05 |
No. of reflections | 1287 |
No. of parameters | 184 |
No. of restraints | 9 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.24, −0.25 |
Computer programs: SMART (Bruker, 1998), SAINT (Bruker, 1998), SHELXS97 (Sheldrick, 1997), SHELXL97 (Sheldrick, 1997), SHELXTL (Bruker, 1998).
D—H···A | D—H | H···A | D···A | D—H···A |
O1—H1···O5i | 0.82 | 1.77 | 2.590 (3) | 173.3 |
O4—H4···O6ii | 0.82 | 1.81 | 2.598 (3) | 161.8 |
O7—H7···O6iii | 0.82 | 1.94 | 2.754 (3) | 171.2 |
N2—H2A···N1iv | 0.89 (3) | 2.05 (2) | 2.872 (3) | 152 (4) |
N2—H2A···O1iv | 0.89 (3) | 2.55 (4) | 3.023 (3) | 113 (3) |
N2—H2B···O7v | 0.90 (3) | 2.01 (2) | 2.848 (3) | 155 (4) |
N2—H2C···O2vi | 0.90 (4) | 2.07 (4) | 2.925 (3) | 158 (4) |
N2—H2C···O5v | 0.90 (4) | 2.48 (4) | 2.998 (3) | 117 (3) |
Symmetry codes: (i) x+1, y−1, z−1; (ii) x−1, y−1, z; (iii) x, y−1, z; (iv) x, y, z+1; (v) x+1, y, z; (vi) x, y+1, z+1. |
Acknowledgements
The author acknowledges Liaodong University for funding this study.
References
Bruker (1998). SMART (Version 5.628) and SAINT (Version 6.02) and SHELXTL (Version 5.1). Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
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Pandiarajan, S., Sridhar, B. & Rajaram, R. K. (2001). Acta Cryst. E57, o466–o468. Web of Science CSD CrossRef IUCr Journals Google Scholar
Sheldrick, G. M. (1996). SADABS. University of Göttingen, Germany. Google Scholar
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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 interactions of organic acids with amino acids in the solid state have been widely investigated due to their interesting hydrogen-bonding interactions (Coupar et al., 1997; Sobczyk et al., 2000; Pandiarajan et al., 2001; Srinivasan et al., 2002). We report here the structure of the title co-crystal (I), Fig.1, formed from pyridine-2,4-dicarboxylic acid and serine in its zwitterionic form.
The crystal is stabilized by an extensive array of intermolecular O–H···O, N–H···N, and N–H···O hydrogen bonds (Table 1), forming a three-dimensional network (Fig. 2).