| Literature DB >> 25449618 |
A Dominic Fortes1, Ian G Wood2, Dario Alfè2, Eduardo R Hernández3, Matthias J Gutmann4, Hazel A Sparkes5.
Abstract
We have determined the crystal structure of ammonium carbonate monohydrate, (Entities:
Keywords: Raman spectroscopy; ammonium carbonate; density functional theory; neutron diffraction
Mesh:
Substances:
Year: 2014 PMID: 25449618 PMCID: PMC4468514 DOI: 10.1107/S205252061402126X
Source DB: PubMed Journal: Acta Crystallogr B Struct Sci Cryst Eng Mater ISSN: 2052-5192
Figure 1The ternary system H2O–CO2–NH3. With the exception of crystalline end members (e.g. water ice, dry ice), the compositions of compounds with known crystal structures are marked with filled circles; the only compound with an as-yet undetermined structure is the title compound, ammonium carbonate monohydrate (marked with an open circle). Numbers indicate the following phases: (1) ammonia dihydrate; (2) ammonia monohydrate; (3) ammonia hemihydrate; (4) ammonium carbamate (α and β polymorphs); (5) urea; (6) CO2 clathrate hydrate; (7) solid carbonic acid (α and β polymorphs); (8) ammonium carbonate monohydrate; (9) ammonium sesquicarbonate monohydrate; (10) ammonium bicarbonate.
Figure 2(a) Drawing of ammonium carbonate monohydrate crystal from Divers (1870 ▸) compared with photographs of our crystals (b) immersed in solution, and (c) in air.
Experimental details
| 10K | 100K | |
|---|---|---|
| Crystal data | ||
| Chemical formula | CO3H2O2H4N | CO3H2O2H4N |
|
| 114.11 | 114.11 |
| Crystal system, space group | Orthorhombic, | Orthorhombic, |
|
| 12.047(3), 4.4525(11), 11.023(3) | 12.056(3), 4.4519(11), 11.016(3) |
|
| 591.3(3) | 591.2(3) |
|
| 4 | 4 |
| Radiation type | Neutron, = 0.48-7.0 | Neutron, = 0.48-7.0 |
| (mm1) | 0.00 | 0.00 |
| Crystal size (mm) | 4.00 4.00 4.00 | 4.00 4.00 4.00 |
| Data collection | ||
| Diffractometer | SXD | SXD |
| Absorption correction | ||
| No. of measured, independent and observed [ | 12888, 2773, 12888 | 7209, 1618, 7209 |
| Refinement | ||
|
| 0.091, 0.259, 1.08 | 0.094, 0.266, 1.09 |
|
| 0.0742 | 0.0713 |
|
| 0.0621 | 0.0585 |
| No. of reflections | 12888 | 7209 |
| No. of parameters | 104 | 104 |
| No. of restraints | 0 | 0 |
| max, min (e 3) | 4.02, 5.60 | 2.09, 2.52 |
| Extinction coefficient | 0.048(3) | 0.043(3) |
For completeness, we report the Rietveld R-factors on F 2 (R and wR, where the weighting, w, is detailed in the CIFs) as well as the calculated R-factor based on F (R 1), after the reflection set is merged for Fourier-map generation, and a measure of the signal to noise ratio in the data, R . Note that, whilst the values of wR are large and might be deemed unacceptable for an X-ray analysis, these are typical of single-crystal neutron refinements on F 2. Computer programs: SXD2001 (Gutmann, 2005 ▸), SHELXS2014 (Gruene et al., 2014 ▸), DIAMOND (Putz Brandenburg, 2006 ▸), publCIF (Westrip, 2010 ▸).
Figure 3(a) Slice through F obs, a Fourier map computed from the observed structure factors phased on the refined atomic coordinates. The slice shows the nuclear scattering density in the ac plane at b = 0.75; positive maxima correspond to C, N and O atoms, whereas negative minima correspond to H atoms. A drawing of the structure in this plane is shown in Fig. 5 ▸. (b) Electron density in the same plane as Fig. 3 ▸(a) calculated by VASP at zero pressure and temperature. Two-dimensional visualizations created using VESTA (Momma & Izumi, 2011 ▸).
Figure 4The asymmetric unit of ammonium carbonate monohydrate with atomic displacement ellipsoids determined at 100 K drawn at the 50% probability level. Dashed rods correspond to hydrogen bonds. Superscripts denote symmetry operations (i) ; (ii) . Three-dimensional structure visualizations created using DIAMOND (Putz & Brandenburg, 2006 ▸).
Figure 5The chain motif of alternating hydrogen-bonded carbonate and N1 ammonium ions parallel to the a-axis. Note that the N2 ammonium cations ‘decorate’ this chain, donating the sole hydrogen bond to the water molecule. This viewing direction corresponds to that shown in Figs. 3 ▸(a) and (b). As in Fig. 4 ▸, dashed rods depict hydrogen bonds.
Figure 6The complete structure of ammonium carbonate monohydrate is built from the chains shown in Fig. 5 ▸ arranged into sheets at y = 0.25 (blurred) and y = 0.75 (sharp). Hydrogen bonds (not shown) extend between these sheets to form a three-dimensional framework. The unit cell in the ac plane is marked by the superimposed box with the 21 symmetry axis indicated by a symbol.
Comparison of covalent bond lengths (, uncorrected for thermal motion) obtained from DFT calculations and single-crystal neutron diffraction at 10 and 100K
|
| 10K | 100K | |
|---|---|---|---|
| N1H1 | 1.0479 | 1.040(3) | 1.040(6) |
| N1H2 | 1.0577 | 1.053(6) | 1.053(8) |
| N1H3 | 1.0552 | 1.045(5) | 1.048(8) |
| N2H4 | 1.0452 | 1.040(3) | 1.037(6) |
| N2H5 | 1.0566 | 1.041(6) | 1.043(8) |
| N2H6 | 1.0492 | 1.043(6) | 1.039(8) |
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| O | 0.9906 | 0.975(4) | 0.972(6) |
| C1O1 | 1.2975 | 1.287(3) | 1.286(4) |
| C1O2 | 1.2993 | 1.287(3) | 1.282(5) |
| C1O3 | 1.3008 | 1.289(2) | 1.288(4) |
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Comparison of bond angles () obtained from DFT calculations and single-crystal neutron diffraction at 10 and 100K
|
| 10K | 100K | |
|---|---|---|---|
| H1N1H1i | 108.14 | 108.0(5) | 107.6(7) |
| H1N1H2 | 110.75 | 110.7(3) | 111.0(4) |
| H1N1H3 | 108.85 | 109.2(3) | 109.1(4) |
| H2N1H3 | 109.46 | 109.0(5) | 108.9(7) |
| H4N2H4i | 109.34 | 109.7(4) | 109.4(7) |
| H4N2H5 | 108.23 | 107.9(3) | 108.1(5) |
| H4N2H6 | 109.85 | 110.1(3) | 110.1(5) |
| H5N2H6 | 111.28 | 111.0(5) | 111.0(7) |
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| H7O | 106.39 | 106.2(6) | 105.7(9) |
| O1C1O2 | 120.21 | 120.3(2) | 120.2(3) |
| O1C1O3 | 120.41 | 120.2(3) | 120.3(3) |
| O2C1O3 | 119.38 | 119.5(2) | 119.6(3) |
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Symmetry codes: (i) ; (ii) .
Hydrogen-bond lengths () and angles () determined by single-crystal neutron diffraction at 10 and 100K, and by DFT calculations
|
| 10K | 100K | |||||||
|---|---|---|---|---|---|---|---|---|---|
| H |
|
| H |
|
| H |
|
| |
| N1H1O3 | 1.7640 | 2.8027 | 170.44 | 1.766(4) | 2.797(2) | 170.6(4) | 1.764(6) | 2.796(2) | 170.7(6) |
| N1H2O1 | 1.7308 | 2.7819 | 171.89 | 1.721(6) | 2.766(3) | 171.1(5) | 1.719(9) | 2.765(4) | 171.5(7) |
| N1H3O2 | 1.7436 | 2.7935 | 172.75 | 1.740(5) | 2.778(2) | 171.6(6) | 1.739(8) | 2.781(4) | 171.8(8) |
| N2H4O1 | 1.8224 | 2.8604 | 171.58 | 1.808(3) | 2.840(1) | 171.7(4) | 1.808(6) | 2.838(2) | 171.8(6) |
| N2H5O | 1.7255 | 2.7745 | 171.32 | 1.807(7) | 2.831(3) | 167.0(5) | 1.805(10) | 2.830(5) | 166.7(8) |
| N2H6O3 | 1.8130 | 2.8534 | 170.68 | 1.814(6) | 2.847(3) | 170.2(5) | 1.816(8) | 2.846(4) | 170.4(8) |
| O | 1.7937 | 2.7843 | 178.99 | 1.813(4) | 2.788(2) | 179.6(5) | 1.816(6) | 2.788(3) | 179.8(7) |
Experimental and computational NH bond lengths () in ammonium ions in a variety of environments; crystallographic values are all sourced from single-crystal neutron diffraction studies
Where there is more than one symmetry-inequivalent NH bond the mean bond length (and standard uncertainties) are reported.
| Compound | Conditions | NH () | Reference |
|---|---|---|---|
| NH4 + | Gas phase | 1.02873 0.00002 | Crofton Oka (1987 |
| ND4 + | Gas phase | 1.0267 0.0005 | Crofton Oka (1987 |
| NH4 + | DFT (PW91) | 1.055 | Fortes |
| NH4OH | DFT (PW91) | 1.063 0.013 | Fortes |
| NH4CN | DFT (BLYP) I | 1.034 | Alavi |
| NH4CN | DFT (BLYP) II | 1.050 | Alavi |
| ND4(NH3) | (B3LYP/6-31+G*) | 1.046 0.002 | Wang |
| ND4(NH3) | (MP2/6-31+G*) | 1.043 0.003 | Wang |
| NH4Cl | 295K | 1.050 0.005 | Kurki-Suonio |
| NH4Br | 296K | 1.046 0.005 | Seymour Pryor (1970 |
| NH4Br | 409K | 1.040 0.005 | Seymour Pryor (1970 |
| NH4C2O4H2O | 274K | 1.029 0.005 | Taylor Sabine (1972 |
| ND4C2O4D2O | 274K | 1.033 0.002 | Taylor Sabine (1972 |
| (NH4)2C4H4O6 | Room-temperature | 1.04 0.03 | Yadava Padmanabhan (1976 |
| (NH4)2SO4 ( | Room-temperature | 1.069 0.018 | Schlemper Hamilton (1966 |
| (NH4)2SO4 ( | 180K | 1.050 0.016 | Schlemper Hamilton (1966 |
| (NH4)2BeF4 ( | 200K | 0.989 0.014 | Srivastava |
| (NH4)2BeF4 ( | 163K | 1.005 0.015 | Srivastava |
| (NH4)2BeF4 ( | 20K | 1.018 0.015 | Srivastava |
| NH4ClO4 | 78K | 0.995 0.010 | Choi |
| NH4ClO4 | 10K | 1.037 0.014 | Choi |
| ND4NO3 (II) | 355K | 0.988 0.002 | Lucas |
| NH4NO3 (III) | 298K | 1.035 0.007 | Choi Prask (1982 |
| NH4NO3 (IV) | 298K | 0.990 0.004 | Choi |
| ND4NO3 (IV) | 298K | 0.972 0.008 | Lucas |
| ND4NO3 (V) | 233K | 1.006 0.016 | Ahtee |
| NH4NH3CH2COOHSO4 | Room-temperature | 1.031 0.018 | Vilminot |
| (ND4)2Cu(SO4)26D2O | 15K | 1.028 0.004 | Simmons |
| (ND4)2Cr(SO4)26D2O | 4.3K | 1.028 0.002 | Figgis |
| (ND4)2Fe(SO4)26D2O | 4.3K | 1.025 0.006 | Figgis |
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Properties of the electron density at the bond critical points in the ammonium ions as determined by DFT calculations
Electron density, (r), is reported in e3, whereas the Laplacian, 2(r), and the eigenvalues of the Hessian matrix, 1, 2 and 3, are given in e5.
| Fractional coordinates of BCP | Topology of electron density at BCP | |||||||
|---|---|---|---|---|---|---|---|---|
|
|
|
| ( |
2( | 1 | 2 | 3 | |
| N1H1 | 0.1166 | 0.6071 | 0.0868 | 2.1581 | 47.083 | 29.697 | 28.538 | 11.152 |
| N1H2 | 0.0344 | 0.7500 | 0.1360 | 2.0971 | 45.462 | 28.166 | 27.760 | 10.464 |
| N1H3 | 0.1314 | 0.7500 | 0.1859 | 2.1145 | 46.979 | 28.915 | 28.472 | 10.407 |
| N2H4 | 0.1299 | 0.8928 | 0.6928 | 2.1795 | 47.348 | 30.163 | 28.644 | 11.460 |
| N2H5 | 0.0672 | 0.7500 | 0.6194 | 2.1038 | 48.144 | 29.216 | 28.682 | 9.754 |
| N2H6 | 0.1748 | 0.7500 | 0.6052 | 2.1512 | 48.482 | 30.035 | 29.192 | 10.744 |
| NH4F |
| Expt. | 1.975 | 13.0 | 22.3 | 21.6 | 31.0 | |
| Calc. | 1.865 | 11.2 | 21.1 | 20.2 | 30.3 | |||
| NH4HF2
|
| Expt. | 2.230 | 35.0 | 33.8 | 31.3 | 30.1 | |
| Calc. | 2.185 | 28.3 | 29.2 | 28.9 | 29.7 | |||
| NH4B6H6
| Calc. | 2.220 | 34.0 |
|
| 24.8 | ||
| NH4C2HO4C2H2O42H2O | Expt. | 2.207 | 37.0 | 30.1 | 29.3 | 22.4 | ||
van Reeuwijk et al. (2000 ▸).
Mebs et al. (2013 ▸) 1 and 2 estimated from the quoted bond ellipticity [ = 1/ 2) 1] and the Laplacian.
Stash et al. (2013 ▸).
Properties of the electron density at the bond critical points in the hydrogen bonds as determined from the DFT calculations
Electron density, (r), is reported in e3, whereas the Laplacian, 2(r), and the eigenvalues of the Hessian matrix, 1, 2 and 3, are given in e5.
| Fractional coordinates of BCP | Topology of electron density at BCP | |||||||
|---|---|---|---|---|---|---|---|---|
|
|
|
| ( |
2( | 1 | 2 | 3 | |
| H1O3 | 0.1429 | 0.4558 | 0.0492 | 0.2767 | 2.327 | 1.613 | 1.539 | 5.478 |
| H2O1 | 0.0320 | 0.7500 | 0.1548 | 0.3124 | 2.543 | 1.874 | 1.825 | 6.242 |
| H3O2 | 0.1615 | 0.7500 | 0.2539 | 0.2963 | 2.465 | 1.749 | 1.707 | 5.921 |
| H4O1 | 0.1289 | 0.4531 | 0.7430 | 0.2460 | 2.124 | 1.362 | 1.317 | 4.803 |
| H5O | 0.0034 | 0.7500 | 0.5946 | 0.3158 | 2.572 | 1.933 | 1.854 | 6.360 |
| H6O3 | 0.2333 | 0.7500 | 0.5602 | 0.2625 | 2.065 | 1.508 | 1.440 | 5.013 |
| H7O2 | 0.1504 | 0.5358 | 0.3899 | 0.2561 | 2.079 | 1.464 | 1.414 | 4.957 |
Energetic properties of the hydrogen bonds
The local kinetic energy density, G(r), the local potential energy density, V(r), and the total energy density, H(r), at the bond critical point are all given in atomic units. Conversion factors used: 1a.u. of (r) = 6.7483e3; 1a.u. of 2(r) = 24.099e5; 1a.u. of energy density = 2625.4729kJmol1. The hydrogen bond energies, E HB, are in units of kJmol1.
| Derived hydrogen bond energy | |||||||
|---|---|---|---|---|---|---|---|
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| H1O3 | 0.03009 | 0.03604 | 0.00595 | 47.32 | 38.58 | 33.89 | 36.24 |
| H2O1 | 0.03473 | 0.04307 | 0.00835 | 56.55 | 42.87 | 39.12 | 41.00 |
| H3O2 | 0.03273 | 0.03989 | 0.00716 | 52.37 | 40.93 | 36.87 | 38.90 |
| H4O1 | 0.02619 | 0.03035 | 0.00416 | 39.85 | 35.11 | 29.50 | 32.31 |
| H5O | 0.03524 | 0.04380 | 0.00856 | 57.50 | 43.32 | 39.69 | 41.50 |
| H6O3 | 0.02711 | 0.03279 | 0.00568 | 43.04 | 36.59 | 30.53 | 33.56 |
| H7O2 | 0.02669 | 0.03181 | 0.00512 | 41.75 | 36.00 | 30.06 | 33.03 |
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Figure 7Comparison of the chain motifs occurring in (a) ammonium sesquicarbonate monohydrate and (b) ammonium bicarbonate.
Figure 8Comparison of the water–carbonate structures formed in (a) ammonium carbonate monohydrate and (b) sodium carbonate monohydrate.
Figure 9Raman spectra of ammonium carbonate monohydrate collected at 263 K (bottom), 195 K (middle) and 80 K (top). DFT-calculated Raman-active zone-centre phonon frequencies of various symmetries (A, B 1, B 2 and B 3) are shown by vertical tick marks beneath the spectra. Broad identifications of the normal modes and combinations responsible for the observed bands are labelled. Additional details are given in Table 9 ▸ and Figs. 10–12 ▸ ▸ ▸.
Assignment of observed Raman-active vibrational modes in ammonium carbonate monohydrate at 80K
| Observed frequency (cm1) | Relative intensity (%) | Assignment | Observed frequency (cm1) | Relative intensity (%) | Assignment | ||
|---|---|---|---|---|---|---|---|
| 175.2(4) | 3.2 | 1935(1) | 1.9 |
|
| ||
| 218.5(1) | 42.9 |
|
| 1990(2) | 3.4 | ||
| 234.1(1) | 26.5 | 2037(4) | 0.9 | ||||
| 258.6(1) | 21.9 | 2185.9(6) | 1.0 |
|
| ||
| 280.9(1) | 16.6 | 2226.9(1) | 5.9 | ||||
| 507(1) | 2.0 |
|
| 2263.1(2) | 3.0 | ||
| 528.0(4) | 1.2 | 2296.5(5) | 1.0 | ||||
| 573(2) | 0.7 | 2683.0(3) | 11.1 |
|
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| 608(3) | 0.4 | 2774.1(3) | 7.5 | ||||
| 687.6(6) | 3.0 |
|
| 2839.8(3) | 9.6 | ||
| 709.2(6) | 1.7 | 2889.5(2) | 36.5 | NH4 + 1 | |||
| 745.3(5) | 3.7 | H2O libr | 2903(2) | 15.6 |
|
| |
| 966(5) | 1.4 | 2976(5) | 12.4 | ||||
| 1056.8(7) | 7.2 | CO3
2
1( | 3011(2) | 16.0 | |||
| 1074.66(4) | 100.0 | CO3
2
1( | 3066(3) | 2.1 | |||
| 1115(4) | 1.3 | 3094(1) | 10.4 | ||||
| 1384.8(2) | 2.3 | CO3
2
3( | 3134(2) | 3.0 | |||
| 1424.3(3) | 2.7 | CO3
2
3( | 3224(1) | 2.8 | NH4 + (2 + 4)? | ||
| 1474.9(2) | 3.5 |
|
| 3296.88(4) | 43.9 | H2O 1/3 | |
| 1497.8(1) | 5.0 | 3357(1) | 4.4 |
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| 1517.5(4) | 1.2 | 3494(1) | 1.8 | ||||
| 1555.0(2) | 2.9 | ||||||
| 1696.4(5) | 2.0 |
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| ||||
| 1727.3(1) | 8.1 | ||||||
| 1745.2(2) | 2.6 | ||||||
| 1756.3(3) | 2.9 | ||||||
| 1769(1) | 0.8 |
Figure 10Deconvolution of the high-frequency bands and interpretation in terms of the normal modes, overtones and combinations responsible. Individual pure Lorentzian contributions are drawn in red whilst the sum is drawn in blue. Band centres are obtained by least-squares fitting. The scatterplots underneath the spectrum reports the residuals between the best fit and the data.
Figure 11Deconvolution of the mid-frequency bands and interpretation in terms of the normal modes responsible. Individual pure Lorentzian contributions are drawn in red whilst the sum is drawn in blue. Band centres and 1σ uncertainties are obtained by least-squares fitting. The scatterplots underneath the spectra report the residuals between the best fit and the data.
Figure 12Comparison between the ammonium symmetric and asymmetric bending regions of the spectrum (cf. Fig. 11 ▸) and their associated bands due to combination with the librational mode. The upper sets of data have been red-shifted equally by 500 cm−1. The carbonate stretching modes in (a) are coloured grey for clarity.
Unit-cell parameters of ammonium carbonate monohydrate as a function of temperature
| 10K (neutron) | 100K (neutron) | 245K (X-ray) | |
|---|---|---|---|
|
| 12.047(3) | 12.056(3) | 12.160(7) |
|
| 4.453(1) | 4.452(1) | 4.486(2) |
|
| 11.023(3) | 11.016(3) | 11.011(7) |
|
| 591.3(3) | 591.2(3) | 600.7(6) |
Figure 13Relative thermal expansion of the three crystallographic axes in ammonium carbonate monohydrate. Symbols report data measured by neutron or X-ray diffraction and the dashed lines show qualitative interpolations (guides to the eye).