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In the structure of the title compound, [Cd2(C7H3NO4)2(H2O)6]·2C7H5NO4, a centrosymmetric dinuclear CdII complex and free pyridine-2,6-dicarboxylic acid are present in a 1:2 ratio. Within the dinuclear complex, two Cd2+ ions are bridged by two carboxylate O atoms. Each Cd2+ ion is coordinated by one N and three O atoms of the pyridine-2,6-dicarboxylato ligands and three water O atoms, resulting in a distorted pentagonal bipyramidal coordination. The crystal structure is stabilized by hydrogen bonds involving all the H atoms of the water ligands.
Supporting information
CCDC reference: 180520
Key indicators
- Single-crystal X-ray study
- T = 296 K
- Mean (C-C) = 0.007 Å
- R factor = 0.037
- wR factor = 0.124
- Data-to-parameter ratio = 10.6
checkCIF results
No syntax errors found
ADDSYM reports no extra symmetry
Alert Level A:
PLAT_707 Alert A D...A Calc 3.275(6), Rep 3.117(5), Dev. 26.33 Sigma
O10 -O4 1.555 1.555
PLAT_707 Alert A D...A Calc 3.117(6), Rep 2.956(5), Dev. 26.83 Sigma
O11 -O4 1.555 1.555
PLAT_725 Alert A D-H Calc 0.95685, Rep 1.05000, Dev. 0.09 Ang.
O4 -H5 1.555 1.555
Alert Level C:
PLAT_354 Alert C Short O-H Bond (0.82A) O(9) - H(10) = 0.70 Ang.
3 Alert Level A = Potentially serious problem
0 Alert Level B = Potential problem
1 Alert Level C = Please check
Colorless plate-shaped crystals of (I) were obtained by slow evaporation from a
70% methanol-water solution of pyridine-2,6-dicarboxylic acid and cadmium
chloride in a 1:4 molar ratio at room temperature.
H atoms were located from difference Fourier maps and not refined.
Data collection: MSC/AFC Diffractometer Control Software (Molecular Structure Corporation, 1992); cell refinement: MSC/AFC Diffractometer Control Software; data reduction: TEXSAN (Molecular Structure Corporation, 2000); program(s) used to solve structure: SIR97 (Altomare et al., 1999); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); software used to prepare material for publication: TEXSAN.
Crystal data top
[Cd2(C7H3NO4)2(H2O)6]·2C7H5NO4 | F(000) = 992.0 |
Mr = 997.36 | Dx = 2.005 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.7107 Å |
a = 9.222 (3) Å | Cell parameters from 25 reflections |
b = 14.768 (3) Å | θ = 14.6–15.0° |
c = 12.239 (3) Å | µ = 1.39 mm−1 |
β = 97.70 (2)° | T = 296 K |
V = 1651.8 (7) Å3 | Plate, colorless |
Z = 2 | 0.20 × 0.20 × 0.05 mm |
Data collection top
Rigaku AFC-5R diffractometer | Rint = 0.026 |
ω–2θ scans | θmax = 27.5° |
Absorption correction: ψ scan (North et al., 1968) | h = 0→11 |
Tmin = 0.784, Tmax = 0.933 | k = 0→19 |
4175 measured reflections | l = −15→15 |
3788 independent reflections | 3 standard reflections every 150 reflections |
2684 reflections with I > 2σ(I) | intensity decay: 1.4% |
Refinement top
Refinement on F2 | H-atom parameters not refined |
R[F2 > 2σ(F2)] = 0.037 | w = 1/[σ2(Fo2) + (0.07P)2] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.124 | (Δ/σ)max = 0.001 |
S = 1.08 | Δρmax = 0.84 e Å−3 |
2684 reflections | Δρmin = −1.39 e Å−3 |
253 parameters | |
Crystal data top
[Cd2(C7H3NO4)2(H2O)6]·2C7H5NO4 | V = 1651.8 (7) Å3 |
Mr = 997.36 | Z = 2 |
Monoclinic, P21/c | Mo Kα radiation |
a = 9.222 (3) Å | µ = 1.39 mm−1 |
b = 14.768 (3) Å | T = 296 K |
c = 12.239 (3) Å | 0.20 × 0.20 × 0.05 mm |
β = 97.70 (2)° | |
Data collection top
Rigaku AFC-5R diffractometer | 2684 reflections with I > 2σ(I) |
Absorption correction: ψ scan (North et al., 1968) | Rint = 0.026 |
Tmin = 0.784, Tmax = 0.933 | 3 standard reflections every 150 reflections |
4175 measured reflections | intensity decay: 1.4% |
3788 independent reflections | |
Refinement top
R[F2 > 2σ(F2)] = 0.037 | 253 parameters |
wR(F2) = 0.124 | H-atom parameters not refined |
S = 1.08 | Δρmax = 0.84 e Å−3 |
2684 reflections | Δρmin = −1.39 e Å−3 |
Special details top
Refinement. Refinement using reflections with F2 > -10.0 σ(F2). The
weighted R-factor (wR) and goodness of fit (S) are based
on F2. R-factor (gt) are based on F. The threshold
expression of F2 > 2.0 σ(F2) is used only for calculating
R-factor (gt). |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
Cd | 0.08361 (4) | 0.08439 (2) | 0.90199 (3) | 0.0248 (1) | |
O1 | 0.2982 (5) | 0.4260 (2) | 1.0909 (4) | 0.051 (1) | |
O2 | 0.3019 (5) | 0.2790 (2) | 1.1255 (4) | 0.047 (1) | |
O3 | 0.6280 (5) | 0.1053 (3) | 0.7794 (4) | 0.058 (1) | |
O4 | 0.5744 (4) | 0.0750 (3) | 0.9485 (4) | 0.0434 (10) | |
O5 | −0.2018 (4) | 0.1432 (2) | 1.1556 (3) | 0.0350 (9) | |
O6 | −0.0775 (4) | 0.0686 (2) | 1.0389 (3) | 0.0265 (7) | |
O7 | 0.1386 (4) | 0.3552 (2) | 0.7438 (3) | 0.0325 (8) | |
O8 | 0.1488 (4) | 0.2076 (2) | 0.7800 (3) | 0.0327 (8) | |
O9 | −0.0975 (4) | 0.0371 (2) | 0.7650 (3) | 0.0341 (8) | |
O10 | 0.2573 (4) | 0.0281 (2) | 0.8055 (3) | 0.0380 (9) | |
O11 | 0.2849 (4) | 0.0946 (2) | 1.0519 (3) | 0.0328 (8) | |
N1 | 0.4560 (4) | 0.2408 (3) | 0.9631 (4) | 0.0295 (8) | |
N2 | −0.0157 (4) | 0.2228 (2) | 0.9407 (3) | 0.0220 (8) | |
C1 | 0.4146 (5) | 0.3278 (3) | 0.9752 (4) | 0.029 (1) | |
C2 | 0.4455 (6) | 0.3972 (3) | 0.9052 (5) | 0.036 (1) | |
C3 | 0.5179 (6) | 0.3772 (4) | 0.8177 (5) | 0.043 (1) | |
C4 | 0.5607 (6) | 0.2891 (4) | 0.8035 (5) | 0.040 (1) | |
C5 | 0.5286 (5) | 0.2235 (3) | 0.8773 (5) | 0.031 (1) | |
C6 | 0.3327 (5) | 0.3493 (3) | 1.0713 (4) | 0.029 (1) | |
C7 | 0.5803 (5) | 0.1272 (4) | 0.8636 (5) | 0.037 (1) | |
C8 | −0.0987 (5) | 0.2277 (3) | 1.0229 (4) | 0.0218 (9) | |
C9 | −0.1544 (6) | 0.3097 (3) | 1.0537 (4) | 0.030 (1) | |
C10 | −0.1267 (6) | 0.3873 (3) | 0.9991 (5) | 0.035 (1) | |
C11 | −0.0432 (6) | 0.3823 (3) | 0.9143 (5) | 0.032 (1) | |
C12 | 0.0120 (5) | 0.2991 (3) | 0.8874 (4) | 0.0237 (9) | |
C13 | −0.1290 (5) | 0.1394 (3) | 1.0788 (4) | 0.0235 (9) | |
C14 | 0.1073 (5) | 0.2878 (3) | 0.7967 (4) | 0.0246 (9) | |
H1 | 0.4164 | 0.4584 | 0.9181 | 0.0436* | |
H2 | 0.5388 | 0.4246 | 0.7683 | 0.0513* | |
H3 | 0.6101 | 0.2741 | 0.7424 | 0.0478* | |
H4 | 0.2561 | 0.2853 | 1.1942 | 0.0463* | |
H5 | 0.6363 | 0.0231 | 0.9474 | 0.0463* | |
H6 | −0.2129 | 0.3126 | 1.1123 | 0.0354* | |
H7 | −0.1633 | 0.4447 | 1.0196 | 0.0410* | |
H8 | −0.0245 | 0.4356 | 0.8746 | 0.0383* | |
H9 | −0.1743 | 0.0591 | 0.7633 | 0.0463* | |
H10 | −0.1054 | −0.0099 | 0.7641 | 0.0463* | |
H11 | 0.2219 | −0.0278 | 0.7729 | 0.0463* | |
H12 | 0.3362 | 0.0140 | 0.8790 | 0.0463* | |
H13 | 0.3419 | 0.1265 | 1.0248 | 0.0463* | |
H14 | 0.2340 | 0.1111 | 1.1168 | 0.0463* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
Cd | 0.0334 (2) | 0.0146 (2) | 0.0294 (2) | 0.0022 (1) | 0.0153 (1) | 0.0017 (1) |
O1 | 0.085 (3) | 0.023 (2) | 0.051 (3) | 0.011 (2) | 0.035 (2) | 0.001 (2) |
O2 | 0.073 (3) | 0.026 (2) | 0.052 (3) | 0.006 (2) | 0.043 (2) | −0.001 (2) |
O3 | 0.067 (3) | 0.059 (3) | 0.055 (3) | 0.022 (2) | 0.027 (2) | −0.010 (2) |
O4 | 0.048 (2) | 0.034 (2) | 0.052 (3) | 0.012 (2) | 0.017 (2) | −0.002 (2) |
O5 | 0.051 (2) | 0.018 (2) | 0.042 (2) | 0.005 (1) | 0.031 (2) | 0.003 (1) |
O6 | 0.041 (2) | 0.011 (1) | 0.032 (2) | 0.005 (1) | 0.022 (1) | 0.004 (1) |
O7 | 0.043 (2) | 0.018 (2) | 0.040 (2) | 0.001 (1) | 0.019 (2) | 0.009 (1) |
O8 | 0.050 (2) | 0.014 (1) | 0.040 (2) | 0.003 (1) | 0.029 (2) | 0.004 (1) |
O9 | 0.043 (2) | 0.018 (2) | 0.043 (2) | 0.005 (1) | 0.008 (2) | 0.000 (1) |
O10 | 0.050 (2) | 0.024 (2) | 0.046 (2) | 0.006 (2) | 0.026 (2) | 0.005 (2) |
O11 | 0.037 (2) | 0.028 (2) | 0.036 (2) | −0.004 (1) | 0.014 (2) | −0.002 (2) |
N1 | 0.028 (2) | 0.028 (2) | 0.033 (2) | 0.001 (2) | 0.010 (2) | −0.004 (2) |
N2 | 0.028 (2) | 0.016 (2) | 0.024 (2) | 0.001 (1) | 0.011 (2) | −0.001 (1) |
C1 | 0.029 (2) | 0.027 (2) | 0.031 (3) | −0.001 (2) | 0.012 (2) | 0.000 (2) |
C2 | 0.046 (3) | 0.025 (2) | 0.040 (3) | −0.005 (2) | 0.012 (2) | 0.003 (2) |
C3 | 0.043 (3) | 0.048 (3) | 0.042 (3) | −0.010 (3) | 0.018 (3) | 0.007 (3) |
C4 | 0.038 (3) | 0.047 (3) | 0.037 (3) | −0.005 (2) | 0.016 (2) | −0.007 (3) |
C5 | 0.026 (2) | 0.034 (3) | 0.035 (3) | −0.001 (2) | 0.010 (2) | −0.004 (2) |
C6 | 0.034 (2) | 0.026 (2) | 0.028 (3) | 0.001 (2) | 0.010 (2) | 0.000 (2) |
C7 | 0.028 (2) | 0.042 (3) | 0.042 (3) | 0.008 (2) | 0.006 (2) | −0.009 (3) |
C8 | 0.027 (2) | 0.013 (2) | 0.026 (2) | 0.002 (2) | 0.010 (2) | 0.000 (2) |
C9 | 0.045 (3) | 0.019 (2) | 0.029 (3) | 0.003 (2) | 0.018 (2) | 0.000 (2) |
C10 | 0.054 (3) | 0.014 (2) | 0.039 (3) | 0.010 (2) | 0.020 (2) | 0.001 (2) |
C11 | 0.048 (3) | 0.014 (2) | 0.036 (3) | 0.003 (2) | 0.015 (2) | 0.005 (2) |
C12 | 0.030 (2) | 0.018 (2) | 0.024 (2) | 0.002 (2) | 0.007 (2) | 0.002 (2) |
C13 | 0.031 (2) | 0.018 (2) | 0.024 (2) | 0.001 (2) | 0.010 (2) | 0.003 (2) |
C14 | 0.031 (2) | 0.019 (2) | 0.026 (2) | −0.001 (2) | 0.010 (2) | 0.002 (2) |
Geometric parameters (Å, º) top
CD—O6 | 2.396 (4) | N1—C1 | 1.354 (6) |
CD—O6i | 2.376 (3) | N1—C5 | 1.343 (7) |
CD—O8 | 2.478 (4) | N2—C8 | 1.345 (6) |
CD—O9 | 2.310 (4) | N2—C12 | 1.342 (6) |
CD—O10 | 2.271 (4) | C1—C2 | 1.390 (7) |
CD—O11 | 2.434 (3) | C1—C6 | 1.514 (8) |
CD—N2 | 2.315 (4) | C2—C3 | 1.368 (9) |
O1—C6 | 1.209 (6) | C2—H1 | 0.961 |
O2—C6 | 1.284 (6) | C3—C4 | 1.378 (9) |
O2—H4 | 0.994 | C3—H2 | 0.961 |
O3—C7 | 1.216 (8) | C4—C5 | 1.384 (8) |
O4—C7 | 1.301 (7) | C4—H3 | 0.951 |
O4—H5 | 0.958 | C5—C7 | 1.516 (8) |
O5—C13 | 1.227 (6) | C8—C9 | 1.388 (6) |
O6—C13 | 1.271 (5) | C8—C13 | 1.516 (6) |
O7—C14 | 1.242 (6) | C9—C10 | 1.368 (7) |
O8—C14 | 1.271 (5) | C9—H6 | 0.954 |
O9—H9 | 0.777 | C10—C11 | 1.374 (8) |
O9—H10 | 0.698 | C10—H7 | 0.957 |
O10—H11 | 0.955 | C11—C12 | 1.387 (7) |
O10—H12 | 1.099 | C11—H8 | 0.954 |
O11—H13 | 0.810 | C12—C14 | 1.515 (7) |
O11—H14 | 1.005 | | |
| | | |
O1···O10ii | 2.787 (6) | O5···C11ii | 3.327 (6) |
O1···C10iii | 3.293 (6) | O5···C12ii | 3.342 (6) |
O1···O8ii | 3.464 (6) | O5···C3viii | 3.477 (7) |
O1···C3iv | 3.474 (7) | O6···O7ii | 3.191 (5) |
O1···C2iv | 3.518 (7) | O7···O9ix | 2.713 (5) |
O1···O3ii | 3.593 (6) | O7···O11vi | 2.955 (5) |
O2···O8ii | 2.514 (6) | O7···C13vi | 2.973 (5) |
O2···O11 | 2.867 (5) | O7···C2 | 3.286 (6) |
O2···O7ii | 2.980 (6) | O7···C8vi | 3.466 (5) |
O2···C14ii | 3.097 (7) | O7···C3 | 3.509 (7) |
O2···C4ii | 3.172 (7) | O7···C1 | 3.568 (6) |
O2···C5ii | 3.485 (7) | O8···C6vi | 3.357 (7) |
O2···N2 | 3.551 (5) | O8···N1 | 3.404 (5) |
O3···O9v | 2.752 (6) | O8···C5 | 3.553 (6) |
O3···C6vi | 3.535 (7) | O9···C10vi | 3.417 (7) |
O4···O11vii | 2.821 (5) | O9···C9vi | 3.423 (6) |
O4···O4vii | 2.974 (8) | O9···C11x | 3.535 (7) |
O4···O11 | 3.117 (6) | O10···C7 | 3.310 (6) |
O4···C13v | 3.124 (6) | O10···C3xi | 3.518 (7) |
O4···O5v | 3.209 (5) | O10···C6vi | 3.538 (7) |
O4···O6v | 3.254 (5) | O11···N1 | 2.965 (5) |
O4···O10 | 3.275 (5) | C1···C14 | 3.390 (6) |
O4···O10vii | 3.541 (6) | C6···C12 | 3.546 (6) |
O5···O7ii | 3.180 (5) | C7···C13v | 3.502 (7) |
O5···C4viii | 3.183 (7) | C13···C14ii | 3.385 (6) |
O5···C14ii | 3.290 (6) | | |
| | | |
O6—CD—O6i | 69.7 (1) | N1—C1—C6 | 117.5 (4) |
O6—CD—O8 | 135.7 (1) | C2—C1—C6 | 119.3 (4) |
O6—CD—O9 | 91.3 (1) | C1—C2—C3 | 119.0 (5) |
O6—CD—O10 | 151.1 (1) | C1—C2—H1 | 120.5 |
O6—CD—O11 | 87.7 (1) | C3—C2—H1 | 120.5 |
O6—CD—N2 | 69.1 (1) | C2—C3—C4 | 118.8 (6) |
O6i—CD—O8 | 154.1 (1) | C2—C3—H2 | 119.7 |
O6i—CD—O9 | 83.6 (1) | C4—C3—H2 | 121.6 |
O6i—CD—O10 | 81.8 (1) | C3—C4—C5 | 119.2 (6) |
O6i—CD—O11 | 82.9 (1) | C3—C4—H3 | 119.6 |
O6i—CD—N2 | 138.7 (1) | C5—C4—H3 | 121.2 |
O8—CD—O9 | 89.7 (1) | N1—C5—C4 | 123.4 (5) |
O8—CD—O10 | 73.2 (1) | N1—C5—C7 | 117.6 (5) |
O8—CD—O11 | 100.8 (1) | C4—C5—C7 | 119.0 (5) |
O8—CD—N2 | 67.0 (1) | O1—C6—O2 | 124.9 (5) |
O9—CD—O10 | 90.2 (1) | O1—C6—C1 | 121.5 (5) |
O9—CD—O11 | 165.9 (1) | O2—C6—C1 | 113.6 (4) |
O9—CD—N2 | 98.5 (1) | O3—C7—O4 | 125.3 (6) |
O10—CD—O11 | 84.0 (1) | O3—C7—C5 | 119.9 (5) |
O10—CD—N2 | 139.1 (1) | O4—C7—C5 | 114.8 (5) |
O11—CD—N2 | 94.2 (1) | N2—C8—C9 | 121.2 (4) |
C6—O2—H4 | 120.7 | N2—C8—C13 | 116.7 (4) |
C7—O4—H5 | 112.0 | C9—C8—C13 | 122.1 (4) |
CD—O6—CDi | 110.3 (1) | C8—C9—C10 | 119.9 (5) |
CD—O6—C13 | 119.1 (3) | C8—C9—H6 | 120.7 |
CDi—O6—C13 | 129.8 (3) | C10—C9—H6 | 119.4 |
CD—O8—C14 | 119.1 (3) | C9—C10—C11 | 118.9 (5) |
CD—O9—H9 | 117.5 | C9—C10—H7 | 121.1 |
CD—O9—H10 | 112.1 | C11—C10—H7 | 119.9 |
H9—O9—H10 | 108.8 | C10—C11—C12 | 119.2 (5) |
CD—O10—H11 | 108.0 | C10—C11—H8 | 119.9 |
CD—O10—H12 | 94.5 | C12—C11—H8 | 120.9 |
H11—O10—H12 | 109.2 | N2—C12—C11 | 121.9 (5) |
CD—O11—H13 | 101.4 | N2—C12—C14 | 115.5 (4) |
CD—O11—H14 | 102.7 | C11—C12—C14 | 122.6 (4) |
H13—O11—H14 | 125.5 | O5—C13—O6 | 127.0 (4) |
C1—N1—C5 | 116.3 (4) | O5—C13—C8 | 117.3 (4) |
CD—N2—C8 | 118.7 (3) | O6—C13—C8 | 115.7 (4) |
CD—N2—C12 | 122.3 (3) | O7—C14—O8 | 124.6 (5) |
C8—N2—C12 | 118.9 (4) | O7—C14—C12 | 119.5 (4) |
N1—C1—C2 | 123.3 (5) | O8—C14—C12 | 115.9 (4) |
| | | |
CD—O6—CDi—O6i | 0.0000 (2) | O9—CD—O10—H12 | −151.0 |
CD—O6—CDi—O8i | 169.8 (2) | O9—CD—O11—H13 | 123.7 |
CD—O6—CDi—O9i | 93.7 (1) | O9—CD—O11—H14 | −105.6 |
CD—O6—CDi—O10i | −175.1 (2) | O9—CD—N2—C8 | 93.9 (3) |
CD—O6—CDi—O11i | −90.2 (1) | O9—CD—N2—C12 | −89.2 (3) |
CD—O6—CDi—N2i | −1.9 (2) | O10—CD—O6—C13 | 161.0 (3) |
CD—O6—C13—O5 | −173.1 (4) | O10—CD—O6i—C13i | −15.1 (4) |
CD—O6—C13—C8 | 8.2 (5) | O10—CD—O8—C14 | −166.7 (3) |
CD—O6i—CDi—O6 | 0.0000 (1) | O10—CD—O9—H9 | −161.4 |
CD—O6i—CDi—O8i | −173.6 (1) | O10—CD—O9—H10 | 71.4 |
CD—O6i—CDi—O9i | −82.7 (1) | O10—CD—O11—H13 | 57.7 |
CD—O6i—CDi—O10i | 10.0 (3) | O10—CD—O11—H14 | −171.6 |
CD—O6i—CDi—O11i | 83.2 (1) | O10—CD—N2—C8 | −165.8 (3) |
CD—O6i—CDi—N2i | 178.7 (2) | O10—CD—N2—C12 | 11.1 (4) |
CD—O6i—C13i—O5i | 4.1 (7) | O11—CD—O6—C13 | 87.7 (3) |
CD—O6i—C13i—C8i | −177.2 (3) | O11—CD—O6i—C13i | −100.0 (4) |
CD—O8—C14—O7 | 176.9 (3) | O11—CD—O8—C14 | −86.4 (3) |
CD—O8—C14—C12 | −3.7 (5) | O11—CD—O9—H9 | 133.3 |
CD—N2—C8—C9 | 176.5 (3) | O11—CD—O9—H10 | 6.1 |
CD—N2—C8—C13 | −4.1 (5) | O11—CD—O10—H11 | 128.1 |
CD—N2—C12—C11 | −177.3 (3) | O11—CD—O10—H12 | 16.2 |
CD—N2—C12—C14 | 2.6 (5) | O11—CD—N2—C8 | −80.1 (3) |
O1—C6—O2—H4 | −7.3 | O11—CD—N2—C12 | 96.8 (3) |
O1—C6—C1—N1 | 176.4 (5) | N1—C1—C2—C3 | 1.8 (8) |
O1—C6—C1—C2 | −2.7 (7) | N1—C1—C2—H1 | −178.2 |
O2—C6—C1—N1 | −5.4 (6) | N1—C5—C4—C3 | 0.5 (8) |
O2—C6—C1—C2 | 175.6 (4) | N1—C5—C4—H3 | −178.3 |
O3—C7—O4—H5 | 16.8 | N2—CD—O6—C13 | −7.7 (3) |
O3—C7—C5—N1 | 169.7 (5) | N2—CD—O6i—C13i | 171.7 (3) |
O3—C7—C5—C4 | −11.8 (7) | N2—CD—O8—C14 | 3.6 (3) |
O4—C7—C5—N1 | −13.0 (6) | N2—CD—O9—H9 | −21.6 |
O4—C7—C5—C4 | 165.6 (5) | N2—CD—O9—H10 | −148.7 |
O5—C13—C8—N2 | 178.4 (4) | N2—CD—O10—H11 | −142.4 |
O5—C13—C8—C9 | −2.2 (6) | N2—CD—O10—H12 | 105.7 |
O6—CD—O6i—CDi | −0.02 (18) | N2—CD—O11—H13 | −81.2 |
O6—CD—O6i—C13i | 169.7 (4) | N2—CD—O11—H14 | 49.5 |
O6—CD—O8—C14 | 11.5 (4) | N2—C8—C9—C10 | 0.8 (7) |
O6—CD—O9—H9 | 47.5 | N2—C8—C9—H6 | −179.8 |
O6—CD—O9—H10 | −79.6 | N2—C12—C11—C10 | 1.1 (7) |
O6—CD—O10—H11 | 54.0 | N2—C12—C11—H8 | −178.5 |
O6—CD—O10—H12 | −57.9 | C1—N1—C5—C4 | −0.3 (7) |
O6—CD—O11—H13 | −150.1 | C1—N1—C5—C7 | 178.2 (4) |
O6—CD—O11—H14 | −19.3 | C1—C2—C3—C4 | −1.5 (8) |
O6—CD—N2—C8 | 5.8 (3) | C1—C2—C3—H2 | 179.3 |
O6—CD—N2—C12 | −177.3 (4) | C1—C6—O2—H4 | 174.5 |
O6—CDi—O6i—CD | 0.0000 (1) | C2—C1—N1—C5 | −0.9 (7) |
O6—CDi—O6i—C13i | −171.0 (4) | C2—C3—C4—C5 | 0.5 (8) |
O6—CDi—O8i—C14i | −177.7 (3) | C2—C3—C4—H3 | 179.2 |
O6—CDi—O9i—H9i | −116.9 | C3—C2—C1—C6 | −179.2 (5) |
O6—CDi—O9i—H10i | 10.3 | C3—C4—C5—C7 | −178.0 (5) |
O6—CDi—O10i—H11i | −44.5 | C4—C3—C2—H1 | 178.5 |
O6—CDi—O10i—H12i | 67.4 | C5—N1—C1—C6 | −179.9 (4) |
O6—CDi—O11i—H13i | −140.1 | C5—C4—C3—H2 | 179.7 |
O6—CDi—O11i—H14i | 89.1 | C5—C7—O4—H5 | −160.4 |
O6—CDi—N2i—C8i | −3.9 (4) | C6—C1—C2—H1 | 0.8 |
O6—CDi—N2i—C12i | 179.2 (3) | C7—C5—C4—H3 | 3.3 |
O6—C13—C8—N2 | −2.8 (6) | C8—N2—C12—C11 | −0.4 (6) |
O6—C13—C8—C9 | 176.6 (4) | C8—N2—C12—C14 | 179.5 (4) |
O7—C14—C12—N2 | −179.7 (4) | C8—C9—C10—C11 | −0.2 (7) |
O7—C14—C12—C11 | 0.2 (7) | C8—C9—C10—H7 | −179.4 |
O8—CD—O6—C13 | −15.4 (4) | C9—C8—N2—C12 | −0.6 (6) |
O8—CD—O6i—C13i | 0.0 (5) | C9—C10—C11—C12 | −0.8 (7) |
O8—CD—O9—H9 | −88.3 | C9—C10—C11—H8 | 178.8 |
O8—CD—O9—H10 | 144.6 | C10—C9—C8—C13 | −178.5 (4) |
O8—CD—O10—H11 | −128.7 | C10—C11—C12—C14 | −178.8 (4) |
O8—CD—O10—H12 | 119.4 | C11—C10—C9—H6 | −179.5 |
O8—CD—O11—H13 | −13.8 | C12—N2—C8—C13 | 178.8 (4) |
O8—CD—O11—H14 | 116.9 | C12—C11—C10—H7 | 178.4 |
O8—CD—N2—C8 | 180.0 (3) | C13—C8—C9—H6 | 0.8 |
O8—CD—N2—C12 | −3.1 (3) | C14—C12—C11—H8 | 1.6 |
O8—C14—C12—N2 | 0.9 (6) | H1—C2—C3—H2 | −0.7 |
O8—C14—C12—C11 | −179.2 (4) | H2—C3—C4—H3 | −1.6 |
O9—CD—O6—C13 | −106.3 (3) | H6—C9—C10—H7 | 1.3 |
O9—CD—O6i—C13i | 76.0 (4) | H7—C10—C11—H8 | −2.0 |
O9—CD—O8—C14 | 103.0 (3) | H7—C10—C11—H8 | −2.0 |
O9—CD—O10—H11 | −39.1 | | |
Symmetry codes: (i) −x, −y, −z+2; (ii) x, −y+1/2, z+1/2; (iii) −x, −y+1, −z+2; (iv) −x+1, −y+1, −z+2; (v) x+1, y, z; (vi) x, −y+1/2, z−1/2; (vii) −x+1, −y, −z+2; (viii) x−1, −y+1/2, z+1/2; (ix) −x, y+1/2, −z+3/2; (x) −x, y−1/2, −z+3/2; (xi) −x+1, y−1/2, −z+3/2. |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H4···O8ii | 0.99 | 1.54 | 2.515 (6) | 165 |
O4—H5···O11vii | 1.05 | 1.88 | 2.821 (5) | 166 |
O9—H9···O3xii | 0.78 | 1.98 | 2.752 (6) | 172 |
O9—H10···O7x | 0.70 | 2.02 | 2.713 (5) | 177 |
O10—H11···O5i | 0.96 | 1.94 | 2.638 (5) | 128 |
O10—H12···O4 | 1.10 | 2.42 | 3.117 (5) | 133 |
O11—H13···O4 | 0.81 | 2.57 | 2.956 (5) | 127 |
O11—H14···O7ii | 1.01 | 1.95 | 2.956 (6) | 179 |
Symmetry codes: (i) −x, −y, −z+2; (ii) x, −y+1/2, z+1/2; (vii) −x+1, −y, −z+2; (x) −x, y−1/2, −z+3/2; (xii) x−1, y, z. |
Experimental details
Crystal data |
Chemical formula | [Cd2(C7H3NO4)2(H2O)6]·2C7H5NO4 |
Mr | 997.36 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 296 |
a, b, c (Å) | 9.222 (3), 14.768 (3), 12.239 (3) |
β (°) | 97.70 (2) |
V (Å3) | 1651.8 (7) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 1.39 |
Crystal size (mm) | 0.20 × 0.20 × 0.05 |
|
Data collection |
Diffractometer | Rigaku AFC-5R diffractometer |
Absorption correction | ψ scan (North et al., 1968) |
Tmin, Tmax | 0.784, 0.933 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 4175, 3788, 2684 |
Rint | 0.026 |
(sin θ/λ)max (Å−1) | 0.650 |
|
Refinement |
R[F2 > 2σ(F2)], wR(F2), S | 0.037, 0.124, 1.08 |
No. of reflections | 2684 |
No. of parameters | 253 |
No. of restraints | ? |
H-atom treatment | H-atom parameters not refined |
Δρmax, Δρmin (e Å−3) | 0.84, −1.39 |
Selected geometric parameters (Å, º) topCD—O6 | 2.396 (4) | CD—O10 | 2.271 (4) |
CD—O6i | 2.376 (3) | CD—O11 | 2.434 (3) |
CD—O8 | 2.478 (4) | CD—N2 | 2.315 (4) |
CD—O9 | 2.310 (4) | | |
| | | |
O6—CD—O6i | 69.7 (1) | O8—CD—O11 | 100.8 (1) |
O6—CD—O8 | 135.7 (1) | O8—CD—N2 | 67.0 (1) |
O6—CD—O9 | 91.3 (1) | O9—CD—O10 | 90.2 (1) |
O6—CD—O10 | 151.1 (1) | O9—CD—O11 | 165.9 (1) |
O6—CD—O11 | 87.7 (1) | O9—CD—N2 | 98.5 (1) |
O6—CD—N2 | 69.1 (1) | O10—CD—O11 | 84.0 (1) |
O8—CD—O9 | 89.7 (1) | O10—CD—N2 | 139.1 (1) |
O8—CD—O10 | 73.2 (1) | O11—CD—N2 | 94.2 (1) |
Symmetry code: (i) −x, −y, −z+2. |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H4···O8ii | 0.99 | 1.54 | 2.515 (6) | 165 |
O4—H5···O11iii | 1.05 | 1.88 | 2.821 (5) | 166 |
O9—H9···O3iv | 0.78 | 1.98 | 2.752 (6) | 172 |
O9—H10···O7v | 0.70 | 2.02 | 2.713 (5) | 177 |
O10—H11···O5i | 0.96 | 1.94 | 2.638 (5) | 128 |
O10—H12···O4 | 1.10 | 2.42 | 3.117 (5) | 133 |
O11—H13···O4 | 0.81 | 2.57 | 2.956 (5) | 127 |
O11—H14···O7ii | 1.01 | 1.95 | 2.956 (6) | 179 |
Symmetry codes: (i) −x, −y, −z+2; (ii) x, −y+1/2, z+1/2; (iii) −x+1, −y, −z+2; (iv) x−1, y, z; (v) −x, y−1/2, −z+3/2. |
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Pyridine-2,6-dicarboxylic acid (dipicolinic acid) is present in large amounts in bacterial spores (Powell, 1953; Church & Halvorson, 1959). It has been considered that it contributes to the high heat resistance of bacterial spores, in which it forms a metal complex with divalent metal ions, especially with the Ca2+ ion. Many crystal structures of chelate compounds of pyridine-2,6-dicarboxylic acid with divalent ions, such as Ca2+ (Strahs & Dickerson, 1968), Ag2+ (Drew et al., 1970), Ti2+ (Schwarzenbach, 1970), Sr2+ (Palmer et al., 1972), Ni2+ (Quaglieri et al., 1972), Fe2+ (Lainé, Gourdon & Launay, 1995; Lainé, Gourdon, Launay & Tuchagues, 1995), Cu2+, Zn2+ (Okabe & Oya, 2000a) and Mn2+ (Okabe & Oya, 2000b) have been determined. In order to clarify the coordination mode of chelate compounds of pyridine-2,6-dicarboxylic acid with divalent metal ions, we have analyzed the crystal structure of the title compound, (I).
Crystals of (I) were obtained as a 1:2 mixture of the dinuclear metal complex and free pyridine-2,6-dicarboxylic acid. Cd2+ ions are related by center of symmetry to each other. Each Cd2+ ion is coordinated by two O atoms and one N atom of the one ligand molecule, by one carboxylate O atom of the second ligand molecule and by three water O atoms. In the dinuclear complex, the carboxylate group and the N atom form a five-membered chelate ring with the Cd2+ ion (N2/C12/C14/O8/Cd and N2/C8/C13/O6/Cd), and the two Cd2+ ions are bridged by two bifurcated coordination bonds of two carboxylate O atoms [O6 and O6i; symmetry code: (i) -x, -y, 1 - z]. Each Cd2+ ion has seven coordinate bonds, forming a distorted pentagonal bipyramid, in which the N2, O6, O6i, O10 and O8 atoms form the distorted pentagonal plane. The pentagonal bipyramidal coordination of the d3sp3 hybrid orbital of the Cd2+ ion seems to be rare; it usually forms an octahedral d2sp3 hybrid orbital consisting of six coordination bonds. The planar conformation of the free ligand molecules co-crystallized with the chelate complex in (I) resembles the crystal structure of pyridine-2,6-dicarboxylic acid itself (Takusagawa et al., 1973).
Up until now, many crystal structure of chelate compounds of pyridine-2,6-dicarboxylic acid with various metal ions have been determined. In the crystal structure of Ag2+ (Drew et al., 1970), Sr2+ (Palmer et al., 1972), Ni2+ (Quaglieri et al., 1972), Cu2+ and Zn2+ (Okabe & Oya, 2000a), the pyridine-2,6-dicarboxylic acid ligand is coordinated to a mononuclear metal ion and acts as a terdentate ligand, in which the central metal ion is bonded to two N and four O atoms of two ligand molecules. But the Ti2+, Fe2+, Ca2+ and Mn2+ complexes are dinuclear, and the Sr2+ complex is polynuclear. Among these, the structures of Fe2+ (Lainé, Gourdon, Launay & Tuchagues, 1995) and Mn2+ (Okabe & Oya, 2000b) complexes are isomorphous with the Cd2+ complex, which are constituted of the dinuclear metal complex and free ligand molecules in 1:2 ratio. Not only do these structures have the same geometry, but they also have the same space group and similar cell constants. Each metal has three bonds to one ligand molecule, one to the second ligand molecule and three to water molecules. In the crystal structure of the title compound, the complex molecules and free ligand molecules are connected by hydrogen bonds involving all the H atoms of the water ligands.