organic compounds
(R)-(1-Ammonioethyl)phosphonate
aDepartment of Chemistry, University of Aveiro, CICECO, 3810-193 Aveiro, Portugal, and bDepartment of Chemistry, University of Aveiro, QOPNA, 3810-193 Aveiro, Portugal
*Correspondence e-mail: filipe.paz@ua.pt
The title compound, C2H8NO3P, crystallizes in its zwitterionic form H3N+CH(CH3)PO(O−)(OH). In the crystal, the molecules are linked by N—H⋯O and O—H⋯O hydrogen bonds.
Related literature
For the antibacterial activity of the title compound, see: Allen et al. (1979). For the use of the title compound as a co-crystallizing inhibitor on the X-ray structure of the alanine racemase from Bacillus anthracis, a potential anti-anthrax drug target, see: Au et al. (2008). For examples of coordination compounds of the title compound, see: Cui et al. (2006); Carraro et al. (2008). For a description of the graph-set notation for hydrogen-bonded aggregates, see: Grell et al. (1999). For previous work from our research group on the assembly of coordination polymers using phosphonic-based molecules, see: Cunha-Silva, Ananias et al. (2009); Cunha-Silva, Lima et al. (2009); Shi, Cunha-Silva et al. (2008); Shi, Trindade et al. (2008).
Experimental
Crystal data
|
Data collection: APEX2 (Bruker, 2006); cell SAINT-Plus (Bruker, 2006); data reduction: SAINT-Plus; program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL; molecular graphics: DIAMOND (Brandenburg, 2009); software used to prepare material for publication: SHELXTL.
Supporting information
https://doi.org/10.1107/S1600536810030308/tk2694sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S1600536810030308/tk2694Isup2.hkl
The title compound was purchased from Sigma-Aldrich (>97.0%, Fluka) and was used as received without purification. Suitable single crystals were grown from an aqueous solution over a period of two weeks.
1H-NMR (300.13 MHz, D2O) δ: 1.27 (dd, 3H, J(1H-1H) = 7.3 Hz and J(1H-31P)= 14.8 Hz, CH3) and 3.19 (dq, 1H, J(1H-1H)= 7.3 Hz and J(1H-31P) = 12.7 Hz, CH).
13C-NMR (75.47 MHz, D2O) δ: 16.4 (d, J(13C-31P) = 2.6 Hz,CH3) and 47.6 (d, J(13C-31P) = 145.1 Hz,CH).
31P-NMR (121.49 MHz, D2O) δ: 14.8 (dq, J(31P-1H) = 13.8 and 14.6 Hz).
Hydrogen atoms bound to carbon were located at their idealized positions and were included in the final model in the riding-motion approximation with C—H = 1.00 Å (tertiary C—H) or 0.98 Å (–CH3). The isotropic thermal displacement parameters for these atoms were fixed at 1.2 (for methine-H) or 1.5 (methyl-H) times Ueq of the respective parent atom.
Hydrogen atoms associated with the protonated —NH3+ group or the pendant —OH moiety were located from difference Fourier maps and were included in the final model with the distances restrained to 0.95 (1) Å and Uiso=1.5×Ueq of the respective parent atom. The H···H distances of the —NH3+ terminal group were further restrained to 1.55 (1) Å in order to ensure a chemically reasonable geometry for this moiety.
The title compound, R-1-aminoethylphosphonic acid (C2H8NO3P), is the phosphonic analogue of the amino acid alanine and, therefore, it is commonly represented as L-Ala-P (Au et al., 2008). It presents antibacterial activity (Allen et al., 1979) and it has been employed as inhibitor in the crystallization of the enzyme alanine racemase from Bacillus anthracis (Au et al., 2008). Remarkably, only two coordination compounds containing L-Ala-P as ligand are known, namely a racemic coordination polymer of zinc (Cui et al., 2006) and a chiral molybdenum cluster (Carraro et al., 2008). Following our interest in the use of phosphonic acid molecules in the construction of multi-dimensional coordination polymers (Cunha-Silva, Ananias et al., 2009; Cunha-Silva, Lima et al., 2009; Shi, Cunha-Silva et al., 2008; Shi, Trindade et al., 2008), herein we wish to describe the
of the title compound.The title compound crystallises in its zwitterionic form in which the acidic phosphonate moiety donates one proton to the amino group (Fig. 1). Individual molecular units are disposed in a zigzag fashion along the [100] direction of the 〈(DHA) are all greater than 157°. As depicted in Fig. 3, the crystal packing promotes a close proximity between the substituent —CH3 groups which point toward each other.
leading to the formation of a supramolecular chain held together by a combination of the inner ···O1···H1—N1+—H3··· hydrogen bonds [graph set motif C12(4), Grell et al. (1999) - green dashed bonds in Fig. 2], and the outer isolated O2—H4···O3 interactions (violet dashed bonds in Fig. 2). Supramolecular chains are in turn interconnected in the bc plane via the remnant N1+—H2···O2 hydrogen bonds as depicted in Fig. 3 (orange dashed lines). It is noteworthy that all hydrogen bonding interactions are rather strong and directional: while the internuclear D···A distances range from 2.5484 (10) to 2.8369 (12) Å, theFor the antibacterial activity of the title compound, see: Allen et al. (1979). For the use of the title compound as a co-crystallizing inhibitor on the X-ray structure of the alanine racemase from Bacillus anthracis, a potential anti-anthrax drug target, see: Au et al. (2008). For examples of coordination compounds of the title compound, see: Cui et al. (2006); Carraro et al. (2008). For a description of the graph-set notation for hydrogen-bonded aggregates, see: Grell et al. (1999). For previous work from our research group on the assembly of coordination polymers using phosphonic-based molecules, see: Cunha-Silva, Ananias et al. (2009); Cunha-Silva, Lima et al. (2009); Shi, Cunha-Silva et al. (2008); Shi, Trindade et al. (2008).
Data collection: APEX2 (Bruker, 2006); cell
SAINT-Plus (Bruker, 2006); data reduction: SAINT-Plus (Bruker, 2005); program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL (Sheldrick, 2008); molecular graphics: DIAMOND (Brandenburg, 2009); software used to prepare material for publication: SHELXTL (Sheldrick, 2008).C2H8NO3P | F(000) = 264 |
Mr = 125.06 | Dx = 1.583 Mg m−3 |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 3869 reflections |
a = 4.8256 (1) Å | θ = 2.8–35.9° |
b = 10.3928 (3) Å | µ = 0.42 mm−1 |
c = 10.4668 (3) Å | T = 150 K |
V = 524.93 (2) Å3 | Prism, colourless |
Z = 4 | 0.12 × 0.08 × 0.04 mm |
Bruker X8 Kappa CCD APEXII diffractometer | 2535 independent reflections |
Radiation source: fine-focus sealed tube | 2362 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.027 |
ω and phi scans | θmax = 36.3°, θmin = 3.9° |
Absorption correction: multi-scan (SADABS; Sheldrick, 1997) | h = −7→8 |
Tmin = 0.951, Tmax = 0.983 | k = −16→17 |
7972 measured reflections | l = −17→16 |
Refinement on F2 | Secondary atom site location: difference Fourier map |
Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
R[F2 > 2σ(F2)] = 0.025 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.070 | w = 1/[σ2(Fo2) + (0.0415P)2] where P = (Fo2 + 2Fc2)/3 |
S = 1.07 | (Δ/σ)max < 0.001 |
2535 reflections | Δρmax = 0.50 e Å−3 |
77 parameters | Δρmin = −0.26 e Å−3 |
7 restraints | Absolute structure: Flack (1983), 1051 Friedel pairs |
Primary atom site location: structure-invariant direct methods | Absolute structure parameter: 0.00 (8) |
C2H8NO3P | V = 524.93 (2) Å3 |
Mr = 125.06 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 4.8256 (1) Å | µ = 0.42 mm−1 |
b = 10.3928 (3) Å | T = 150 K |
c = 10.4668 (3) Å | 0.12 × 0.08 × 0.04 mm |
Bruker X8 Kappa CCD APEXII diffractometer | 2535 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 1997) | 2362 reflections with I > 2σ(I) |
Tmin = 0.951, Tmax = 0.983 | Rint = 0.027 |
7972 measured reflections |
R[F2 > 2σ(F2)] = 0.025 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.070 | Δρmax = 0.50 e Å−3 |
S = 1.07 | Δρmin = −0.26 e Å−3 |
2535 reflections | Absolute structure: Flack (1983), 1051 Friedel pairs |
77 parameters | Absolute structure parameter: 0.00 (8) |
7 restraints |
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 | ||
P1 | 0.12299 (5) | 0.08570 (2) | 0.11153 (2) | 0.01023 (6) | |
O1 | 0.15178 (17) | 0.13133 (7) | −0.02404 (7) | 0.01436 (13) | |
O2 | 0.33072 (15) | −0.02579 (7) | 0.14607 (8) | 0.01551 (14) | |
H4 | 0.512 (2) | 0.0009 (18) | 0.1437 (15) | 0.023* | |
O3 | −0.16015 (15) | 0.03922 (8) | 0.15035 (8) | 0.01671 (15) | |
N1 | 0.15332 (19) | 0.34471 (8) | 0.15951 (8) | 0.01264 (14) | |
H1 | 0.290 (2) | 0.3648 (15) | 0.0983 (11) | 0.019* | |
H2 | 0.152 (3) | 0.4080 (12) | 0.2239 (10) | 0.019* | |
H3 | −0.0211 (19) | 0.3439 (15) | 0.1171 (13) | 0.019* | |
C1 | 0.2286 (2) | 0.21731 (10) | 0.21766 (9) | 0.01326 (17) | |
H1A | 0.4352 | 0.2143 | 0.2248 | 0.016* | |
C2 | 0.1111 (4) | 0.20387 (11) | 0.35212 (10) | 0.0253 (2) | |
H2A | 0.1924 | 0.2698 | 0.4075 | 0.038* | |
H2B | 0.1557 | 0.1184 | 0.3858 | 0.038* | |
H2C | −0.0906 | 0.2148 | 0.3495 | 0.038* |
U11 | U22 | U33 | U12 | U13 | U23 | |
P1 | 0.00725 (9) | 0.01088 (9) | 0.01254 (9) | −0.00054 (8) | −0.00037 (8) | 0.00118 (8) |
O1 | 0.0141 (3) | 0.0168 (3) | 0.0121 (3) | −0.0005 (3) | −0.0003 (3) | 0.0012 (2) |
O2 | 0.0087 (3) | 0.0130 (3) | 0.0248 (4) | 0.0004 (2) | −0.0024 (2) | 0.0025 (3) |
O3 | 0.0076 (3) | 0.0195 (3) | 0.0229 (3) | −0.0017 (2) | 0.0002 (3) | 0.0051 (3) |
N1 | 0.0126 (3) | 0.0122 (3) | 0.0132 (3) | 0.0000 (3) | 0.0000 (3) | −0.0004 (3) |
C1 | 0.0134 (4) | 0.0137 (4) | 0.0126 (4) | −0.0001 (3) | −0.0025 (3) | 0.0011 (3) |
C2 | 0.0425 (7) | 0.0216 (5) | 0.0118 (4) | 0.0001 (5) | 0.0004 (5) | 0.0019 (4) |
P1—O1 | 1.5025 (8) | N1—H2 | 0.942 (7) |
P1—O3 | 1.5051 (8) | N1—H3 | 0.951 (7) |
P1—O2 | 1.5742 (8) | C1—C2 | 1.5238 (16) |
P1—C1 | 1.8344 (10) | C1—H1A | 1.0000 |
O2—H4 | 0.918 (9) | C2—H2A | 0.9800 |
N1—C1 | 1.5018 (13) | C2—H2B | 0.9800 |
N1—H1 | 0.943 (8) | C2—H2C | 0.9800 |
O1—P1—O3 | 116.12 (4) | N1—C1—C2 | 111.41 (9) |
O1—P1—O2 | 112.98 (4) | N1—C1—P1 | 110.17 (6) |
O3—P1—O2 | 106.25 (4) | C2—C1—P1 | 112.80 (8) |
O1—P1—C1 | 108.11 (5) | N1—C1—H1A | 107.4 |
O3—P1—C1 | 109.15 (5) | C2—C1—H1A | 107.4 |
O2—P1—C1 | 103.46 (4) | P1—C1—H1A | 107.4 |
P1—O2—H4 | 112.2 (12) | C1—C2—H2A | 109.5 |
C1—N1—H1 | 107.5 (10) | C1—C2—H2B | 109.5 |
C1—N1—H2 | 109.1 (9) | H2A—C2—H2B | 109.5 |
H1—N1—H2 | 109.6 (9) | C1—C2—H2C | 109.5 |
C1—N1—H3 | 113.3 (10) | H2A—C2—H2C | 109.5 |
H1—N1—H3 | 107.7 (9) | H2B—C2—H2C | 109.5 |
H2—N1—H3 | 109.5 (10) | ||
O1—P1—C1—N1 | 33.30 (8) | O1—P1—C1—C2 | 158.48 (8) |
O3—P1—C1—N1 | −93.86 (7) | O3—P1—C1—C2 | 31.32 (10) |
O2—P1—C1—N1 | 153.33 (7) | O2—P1—C1—C2 | −81.49 (9) |
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H4···O3i | 0.92 (1) | 1.63 (1) | 2.5484 (10) | 175 (2) |
N1—H1···O1ii | 0.94 (1) | 1.91 (1) | 2.8033 (11) | 157 (1) |
N1—H2···O3iii | 0.94 (1) | 1.90 (1) | 2.8369 (12) | 178 (1) |
N1—H3···O1iv | 0.95 (1) | 1.87 (1) | 2.8160 (12) | 171 (1) |
Symmetry codes: (i) x+1, y, z; (ii) x+1/2, −y+1/2, −z; (iii) −x, y+1/2, −z+1/2; (iv) x−1/2, −y+1/2, −z. |
Experimental details
Crystal data | |
Chemical formula | C2H8NO3P |
Mr | 125.06 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 150 |
a, b, c (Å) | 4.8256 (1), 10.3928 (3), 10.4668 (3) |
V (Å3) | 524.93 (2) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.42 |
Crystal size (mm) | 0.12 × 0.08 × 0.04 |
Data collection | |
Diffractometer | Bruker X8 Kappa CCD APEXII |
Absorption correction | Multi-scan (SADABS; Sheldrick, 1997) |
Tmin, Tmax | 0.951, 0.983 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 7972, 2535, 2362 |
Rint | 0.027 |
(sin θ/λ)max (Å−1) | 0.833 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.025, 0.070, 1.07 |
No. of reflections | 2535 |
No. of parameters | 77 |
No. of restraints | 7 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.50, −0.26 |
Absolute structure | Flack (1983), 1051 Friedel pairs |
Absolute structure parameter | 0.00 (8) |
Computer programs: APEX2 (Bruker, 2006), SAINT-Plus (Bruker, 2006), SAINT-Plus (Bruker, 2005), SHELXTL (Sheldrick, 2008), DIAMOND (Brandenburg, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H4···O3i | 0.918 (9) | 1.633 (9) | 2.5484 (10) | 174.7 (17) |
N1—H1···O1ii | 0.943 (8) | 1.911 (8) | 2.8033 (11) | 157.0 (14) |
N1—H2···O3iii | 0.942 (7) | 1.895 (8) | 2.8369 (12) | 177.6 (14) |
N1—H3···O1iv | 0.951 (7) | 1.873 (8) | 2.8160 (12) | 170.7 (14) |
Symmetry codes: (i) x+1, y, z; (ii) x+1/2, −y+1/2, −z; (iii) −x, y+1/2, −z+1/2; (iv) x−1/2, −y+1/2, −z. |
Acknowledgements
We are grateful to the Fundação para a Ciência e a Tecnologia (FCT, Portugal) for their general financial support (R&D project PTDC/QUI-QUI/098098/2008), for the post-doctoral and PhD research grants Nos. SFRH/BPD/63736/2009 (to JAF) and SFRH/BD/66371/2009 (to SMFV), and for specific funding toward the purchase of the diffractometer.
References
Allen, J. G., Havas, L., Leicht, E., Lenoxsmith, I. & Nisbet, L. J. (1979). Antimicrob. Agents Chemother. 16, 306–313. CrossRef PubMed CAS Web of Science Google Scholar
Au, K., Ren, J., Walter, T. S., Harlos, K., Nettleship, J. E., Owens, R. J., Stuart, D. I. & Esnouf, R. M. (2008). Acta Cryst. F64, 327–333. Web of Science CrossRef CAS IUCr Journals Google Scholar
Brandenburg, K. (2009). DIAMOND. Crystal Impact GbR, Bonn, Germany. Google Scholar
Bruker (2005). SAINT-Plus. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Bruker (2006). APEX2. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Carraro, M., Sartorel, A., Scorrano, G., Maccato, C., Dickman, M. H., Kortz, U. & Bonchio, M. (2008). Angew. Chem. Int. Ed. 47, 7275–7279. Web of Science CSD CrossRef CAS Google Scholar
Cui, L.-Y., Sun, Z.-G., Liu, Z.-M., You, W.-S., Zhu, Z.-M., Meng, L., Chen, H. & Dong, D.-P. (2006). Inorg. Chem. Commun. 9, 1232–1234. Web of Science CSD CrossRef CAS Google Scholar
Cunha-Silva, L., Ananias, D., Carlos, L. D., Paz, F. A. A. & Rocha, J. (2009). Z. Kristallogr. 224, 261–272. Web of Science CSD CrossRef CAS Google Scholar
Cunha-Silva, L., Lima, S., Ananias, D., Silva, P., Mafra, L., Carlos, L. D., Pillinger, M., Valente, A. A., Paz, F. A. A. & Rocha, J. (2009). J. Mater. Chem. 19, 2618–2632. Web of Science CSD CrossRef CAS Google Scholar
Flack, H. D. (1983). Acta Cryst. A39, 876–881. CrossRef CAS Web of Science IUCr Journals Google Scholar
Grell, J., Bernstein, J. & Tinhofer, G. (1999). Acta Cryst. B55, 1030–1043. Web of Science CrossRef CAS IUCr Journals Google Scholar
Sheldrick, G. M. (1997). SADABS. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Shi, F. N., Cunha-Silva, L., Ferreira, R. A. S., Mafra, L., Trindade, T., Carlos, L. D., Paz, F. A. A. & Rocha, J. (2008). J. Am. Chem. Soc. 130, 150–167. Web of Science CSD CrossRef PubMed CAS Google Scholar
Shi, F. N., Trindade, T., Rocha, J. & Paz, F. A. A. (2008). Cryst. Growth Des. 8, 3917–3920. Web of Science CSD CrossRef CAS Google Scholar
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, R-1-aminoethylphosphonic acid (C2H8NO3P), is the phosphonic analogue of the amino acid alanine and, therefore, it is commonly represented as L-Ala-P (Au et al., 2008). It presents antibacterial activity (Allen et al., 1979) and it has been employed as inhibitor in the crystallization of the enzyme alanine racemase from Bacillus anthracis (Au et al., 2008). Remarkably, only two coordination compounds containing L-Ala-P as ligand are known, namely a racemic coordination polymer of zinc (Cui et al., 2006) and a chiral molybdenum cluster (Carraro et al., 2008). Following our interest in the use of phosphonic acid molecules in the construction of multi-dimensional coordination polymers (Cunha-Silva, Ananias et al., 2009; Cunha-Silva, Lima et al., 2009; Shi, Cunha-Silva et al., 2008; Shi, Trindade et al., 2008), herein we wish to describe the crystal structure of the title compound.
The title compound crystallises in its zwitterionic form in which the acidic phosphonate moiety donates one proton to the amino group (Fig. 1). Individual molecular units are disposed in a zigzag fashion along the [100] direction of the unit cell, leading to the formation of a supramolecular chain held together by a combination of the inner ···O1···H1—N1+—H3··· hydrogen bonds [graph set motif C12(4), Grell et al. (1999) - green dashed bonds in Fig. 2], and the outer isolated O2—H4···O3 interactions (violet dashed bonds in Fig. 2). Supramolecular chains are in turn interconnected in the bc plane via the remnant N1+—H2···O2 hydrogen bonds as depicted in Fig. 3 (orange dashed lines). It is noteworthy that all hydrogen bonding interactions are rather strong and directional: while the internuclear D···A distances range from 2.5484 (10) to 2.8369 (12) Å, the 〈(DHA) are all greater than 157°. As depicted in Fig. 3, the crystal packing promotes a close proximity between the substituent —CH3 groups which point toward each other.