organic compounds
3-(1-Ethyl-1H-pyrrole-2-carboxamido)propionic acid monohydrate
aDepartment of Chemistry, Jinan University, Guangzhou, Guangdong, 510632, People's Republic of China
*Correspondence e-mail: xczeng@126.com
The title compound, C10H14N2O3·H2O, was synthesized by alkylation of methyl 3-(1H-pyrrole-2-carboxamido)propionate with ethyl bromide, followed by saponification and acidification. In the intermolecular O—H⋯O and N—H⋯O hydrogen bonds link the molecules, forming layers parallel to the ac plane.
Related literature
For pyrroles sourced from marine organisms, see: Liu et al. (2005). For the bioactivity of pyrrole derivatives, see: Banwell et al. (2006); Sosa et al. (2002). For related structures, see: Zeng et al. (2005); Liu et al. (2006); Tang et al. (2008).
Experimental
Crystal data
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Refinement
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Data collection: SMART (Bruker,1999); cell SAINT-Plus (Bruker, 1999); data reduction: SAINT-Plus; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL.
Supporting information
10.1107/S1600536809026749/rz2348sup1.cif
contains datablocks I, global. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536809026749/rz2348Isup2.hkl
A suspension of potassium carbonate (2.10 mg, 15.0 mmol), ethyl bromide (1.87 ml, 25.0 mmol) and methyl 3-(1H-pyrrole-2-carbonyl)aminopropionate (0.98 g, 5.0 mmol) in acetonitrile (12 ml) was refluxed for 40 h. After evaporation of the solvent, the residue was dissolved in ethyl acetate (15 ml) and washed twice with water. The organic layer was dried over sodium sulfate and evaporated in vacuo. Then the alkylated product was added to a solution of 10% aqueous sodium hydroxide (10 ml) and ethanol (2 ml), and the mixture was stirred at room temperature for 24 h. The hydrolyzed mixture was made acidic with 10% hydrochloric acid to pH 2–3. After filtration, the precipitate was collected as a yellow solid (m.p. 320 K, 92.3% yield). Pale yellow crystals suitable for X-ray analysis were obtained over a period of one week by slow evaporation at room temperature of an ethanol/water solution (3:2 v/v).
All non-H atoms were refined with anisotropic displacement parameters. The water H atoms were located in a difference Fourier map and refined freely. All other H atoms were positioned geometrically and refined using a riding model, with C—H = 0.95-0.99Å, N—H = 0.88 Å, O—H = 0.84 Å, and with Uiso = 1.2 Ueq(C, N) or 1.5 Ueq(C, O) for methyl and hydroxy H atoms.
Data collection: SMART (Bruker,1999); cell
SAINT-Plus (Bruker, 1999); data reduction: SAINT-Plus (Bruker, 1999); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008).C10H14N2O3·H2O | F(000) = 488 |
Mr = 228.25 | Dx = 1.340 Mg m−3 |
Monoclinic, P21/c | Melting point: 320 K |
Hall symbol: -P 2ybc | Mo Kα radiation, λ = 0.71073 Å |
a = 5.2814 (12) Å | Cell parameters from 2595 reflections |
b = 31.795 (7) Å | θ = 2.6–28.0° |
c = 7.0226 (16) Å | µ = 0.10 mm−1 |
β = 106.392 (4)° | T = 173 K |
V = 1131.3 (4) Å3 | Plate, pale yellow |
Z = 4 | 0.47 × 0.44 × 0.15 mm |
Bruker SMART 1K CCD area-detector diffractometer | 2215 independent reflections |
Radiation source: fine-focus sealed tube | 1772 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.028 |
ϕ and ω scans | θmax = 26.0°, θmin = 1.3° |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | h = −6→4 |
Tmin = 0.953, Tmax = 0.985 | k = −39→33 |
5260 measured reflections | l = −8→8 |
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)] = 0.052 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.163 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.14 | w = 1/[σ2(Fo2) + (0.087P)2 + 0.3989P] where P = (Fo2 + 2Fc2)/3 |
2215 reflections | (Δ/σ)max = 0.001 |
155 parameters | Δρmax = 0.30 e Å−3 |
0 restraints | Δρmin = −0.26 e Å−3 |
C10H14N2O3·H2O | V = 1131.3 (4) Å3 |
Mr = 228.25 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 5.2814 (12) Å | µ = 0.10 mm−1 |
b = 31.795 (7) Å | T = 173 K |
c = 7.0226 (16) Å | 0.47 × 0.44 × 0.15 mm |
β = 106.392 (4)° |
Bruker SMART 1K CCD area-detector diffractometer | 2215 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | 1772 reflections with I > 2σ(I) |
Tmin = 0.953, Tmax = 0.985 | Rint = 0.028 |
5260 measured reflections |
R[F2 > 2σ(F2)] = 0.052 | 0 restraints |
wR(F2) = 0.163 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.14 | Δρmax = 0.30 e Å−3 |
2215 reflections | Δρmin = −0.26 e Å−3 |
155 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 | ||
O2 | −0.2174 (3) | 0.48016 (5) | 0.1312 (3) | 0.0377 (4) | |
O1 | 0.4540 (3) | 0.36651 (5) | 0.1693 (2) | 0.0350 (4) | |
N1 | 0.9087 (4) | 0.32234 (6) | 0.4136 (3) | 0.0281 (5) | |
O3 | 0.0271 (4) | 0.53444 (5) | 0.2775 (3) | 0.0370 (5) | |
H3 | −0.1105 | 0.5479 | 0.2213 | 0.055* | |
N2 | 0.3901 (4) | 0.39704 (6) | 0.4423 (3) | 0.0307 (5) | |
H2 | 0.4458 | 0.3994 | 0.5723 | 0.037* | |
C4 | 0.7462 (4) | 0.34863 (6) | 0.4836 (3) | 0.0254 (5) | |
C6 | 0.1614 (4) | 0.42138 (7) | 0.3356 (3) | 0.0295 (5) | |
H6A | 0.0205 | 0.4183 | 0.4023 | 0.035* | |
H6B | 0.0936 | 0.4103 | 0.1990 | 0.035* | |
C5 | 0.5200 (4) | 0.37122 (6) | 0.3528 (3) | 0.0250 (5) | |
C7 | 0.2283 (4) | 0.46754 (7) | 0.3265 (3) | 0.0277 (5) | |
H7A | 0.3132 | 0.4778 | 0.4627 | 0.033* | |
H7B | 0.3567 | 0.4707 | 0.2485 | 0.033* | |
C8 | −0.0108 (5) | 0.49402 (7) | 0.2343 (3) | 0.0267 (5) | |
C3 | 0.8518 (5) | 0.35132 (7) | 0.6881 (3) | 0.0319 (6) | |
H3A | 0.7824 | 0.3673 | 0.7761 | 0.038* | |
C9 | 0.8797 (5) | 0.30933 (8) | 0.2082 (3) | 0.0361 (6) | |
H9A | 1.0516 | 0.2987 | 0.1980 | 0.043* | |
H9B | 0.8319 | 0.3342 | 0.1206 | 0.043* | |
C1 | 1.1074 (5) | 0.30880 (8) | 0.5705 (4) | 0.0350 (6) | |
H1 | 1.2446 | 0.2901 | 0.5629 | 0.042* | |
C10 | 0.6725 (6) | 0.27552 (8) | 0.1358 (4) | 0.0407 (6) | |
H10A | 0.7317 | 0.2493 | 0.2084 | 0.061* | |
H10B | 0.6457 | 0.2708 | −0.0065 | 0.061* | |
H10C | 0.5060 | 0.2846 | 0.1585 | 0.061* | |
C2 | 1.0782 (5) | 0.32635 (8) | 0.7411 (4) | 0.0366 (6) | |
H2A | 1.1912 | 0.3223 | 0.8715 | 0.044* | |
O4 | 0.5768 (4) | 0.57638 (6) | 0.1280 (3) | 0.0343 (4) | |
H4A | 0.584 (6) | 0.5980 (10) | 0.034 (5) | 0.057 (9)* | |
H4B | 0.465 (7) | 0.5596 (10) | 0.074 (5) | 0.051 (9)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O2 | 0.0288 (9) | 0.0372 (9) | 0.0415 (10) | 0.0021 (7) | 0.0009 (8) | −0.0031 (7) |
O1 | 0.0450 (10) | 0.0355 (9) | 0.0196 (8) | 0.0068 (8) | 0.0013 (7) | −0.0001 (6) |
N1 | 0.0253 (10) | 0.0322 (10) | 0.0270 (10) | −0.0003 (8) | 0.0077 (8) | 0.0016 (7) |
O3 | 0.0413 (11) | 0.0273 (8) | 0.0404 (10) | 0.0022 (7) | 0.0087 (8) | −0.0014 (7) |
N2 | 0.0350 (11) | 0.0324 (10) | 0.0220 (9) | 0.0048 (8) | 0.0038 (8) | 0.0004 (8) |
C4 | 0.0285 (12) | 0.0239 (10) | 0.0227 (11) | −0.0027 (9) | 0.0057 (9) | 0.0011 (8) |
C6 | 0.0255 (12) | 0.0301 (12) | 0.0309 (12) | 0.0011 (9) | 0.0048 (9) | −0.0013 (9) |
C5 | 0.0290 (11) | 0.0225 (10) | 0.0222 (11) | −0.0043 (9) | 0.0049 (9) | 0.0010 (8) |
C7 | 0.0255 (11) | 0.0311 (12) | 0.0265 (11) | −0.0032 (9) | 0.0076 (9) | −0.0026 (9) |
C8 | 0.0311 (12) | 0.0292 (11) | 0.0219 (10) | −0.0009 (9) | 0.0110 (9) | −0.0003 (8) |
C3 | 0.0376 (13) | 0.0312 (12) | 0.0235 (11) | −0.0002 (10) | 0.0029 (10) | 0.0005 (9) |
C9 | 0.0368 (14) | 0.0459 (14) | 0.0306 (12) | 0.0049 (11) | 0.0179 (11) | 0.0016 (10) |
C1 | 0.0258 (12) | 0.0371 (13) | 0.0393 (13) | 0.0020 (10) | 0.0044 (10) | 0.0052 (10) |
C10 | 0.0506 (16) | 0.0392 (14) | 0.0304 (13) | 0.0054 (12) | 0.0082 (12) | −0.0061 (10) |
C2 | 0.0341 (13) | 0.0394 (14) | 0.0282 (12) | −0.0038 (11) | −0.0044 (10) | 0.0039 (10) |
O4 | 0.0431 (11) | 0.0282 (9) | 0.0289 (9) | −0.0011 (8) | 0.0058 (8) | 0.0009 (7) |
O2—C8 | 1.210 (3) | C7—H7A | 0.9900 |
O1—C5 | 1.245 (3) | C7—H7B | 0.9900 |
N1—C1 | 1.359 (3) | C3—C2 | 1.395 (4) |
N1—C4 | 1.384 (3) | C3—H3A | 0.9500 |
N1—C9 | 1.466 (3) | C9—C10 | 1.516 (4) |
O3—C8 | 1.323 (3) | C9—H9A | 0.9900 |
O3—H3 | 0.8400 | C9—H9B | 0.9900 |
N2—C5 | 1.335 (3) | C1—C2 | 1.370 (4) |
N2—C6 | 1.452 (3) | C1—H1 | 0.9500 |
N2—H2 | 0.8800 | C10—H10A | 0.9800 |
C4—C3 | 1.388 (3) | C10—H10B | 0.9800 |
C4—C5 | 1.473 (3) | C10—H10C | 0.9800 |
C6—C7 | 1.515 (3) | C2—H2A | 0.9500 |
C6—H6A | 0.9900 | O4—H4A | 0.96 (3) |
C6—H6B | 0.9900 | O4—H4B | 0.81 (3) |
C7—C8 | 1.504 (3) | ||
C1—N1—C4 | 108.54 (19) | O2—C8—O3 | 123.0 (2) |
C1—N1—C9 | 123.4 (2) | O2—C8—C7 | 124.0 (2) |
C4—N1—C9 | 128.08 (19) | O3—C8—C7 | 113.00 (19) |
C8—O3—H3 | 109.5 | C4—C3—C2 | 107.7 (2) |
C5—N2—C6 | 123.23 (18) | C4—C3—H3A | 126.1 |
C5—N2—H2 | 118.4 | C2—C3—H3A | 126.1 |
C6—N2—H2 | 118.4 | N1—C9—C10 | 113.3 (2) |
N1—C4—C3 | 107.2 (2) | N1—C9—H9A | 108.9 |
N1—C4—C5 | 123.25 (19) | C10—C9—H9A | 108.9 |
C3—C4—C5 | 129.3 (2) | N1—C9—H9B | 108.9 |
N2—C6—C7 | 111.60 (19) | C10—C9—H9B | 108.9 |
N2—C6—H6A | 109.3 | H9A—C9—H9B | 107.7 |
C7—C6—H6A | 109.3 | N1—C1—C2 | 109.2 (2) |
N2—C6—H6B | 109.3 | N1—C1—H1 | 125.4 |
C7—C6—H6B | 109.3 | C2—C1—H1 | 125.4 |
H6A—C6—H6B | 108.0 | C9—C10—H10A | 109.5 |
O1—C5—N2 | 122.0 (2) | C9—C10—H10B | 109.5 |
O1—C5—C4 | 121.9 (2) | H10A—C10—H10B | 109.5 |
N2—C5—C4 | 116.13 (18) | C9—C10—H10C | 109.5 |
C8—C7—C6 | 112.51 (19) | H10A—C10—H10C | 109.5 |
C8—C7—H7A | 109.1 | H10B—C10—H10C | 109.5 |
C6—C7—H7A | 109.1 | C1—C2—C3 | 107.3 (2) |
C8—C7—H7B | 109.1 | C1—C2—H2A | 126.3 |
C6—C7—H7B | 109.1 | C3—C2—H2A | 126.3 |
H7A—C7—H7B | 107.8 | H4A—O4—H4B | 108 (3) |
C1—N1—C4—C3 | 0.7 (2) | N2—C6—C7—C8 | −174.39 (18) |
C9—N1—C4—C3 | 179.4 (2) | C6—C7—C8—O2 | −19.0 (3) |
C1—N1—C4—C5 | 175.90 (19) | C6—C7—C8—O3 | 161.00 (19) |
C9—N1—C4—C5 | −5.3 (3) | N1—C4—C3—C2 | −0.3 (3) |
C5—N2—C6—C7 | −106.2 (2) | C5—C4—C3—C2 | −175.1 (2) |
C6—N2—C5—O1 | 0.6 (3) | C1—N1—C9—C10 | 101.2 (3) |
C6—N2—C5—C4 | −179.44 (19) | C4—N1—C9—C10 | −77.4 (3) |
N1—C4—C5—O1 | 3.2 (3) | C4—N1—C1—C2 | −0.8 (3) |
C3—C4—C5—O1 | 177.3 (2) | C9—N1—C1—C2 | −179.6 (2) |
N1—C4—C5—N2 | −176.8 (2) | N1—C1—C2—C3 | 0.6 (3) |
C3—C4—C5—N2 | −2.6 (3) | C4—C3—C2—C1 | −0.2 (3) |
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3···O4i | 0.84 | 1.83 | 2.669 (3) | 173 |
N2—H2···O4ii | 0.88 | 2.28 | 3.091 (3) | 154 |
O4—H4A···O1iii | 0.96 (3) | 1.79 (3) | 2.737 (2) | 170 (3) |
O4—H4B···O2iv | 0.81 (3) | 2.08 (4) | 2.863 (3) | 164 (3) |
Symmetry codes: (i) x−1, y, z; (ii) −x+1, −y+1, −z+1; (iii) −x+1, −y+1, −z; (iv) −x, −y+1, −z. |
Experimental details
Crystal data | |
Chemical formula | C10H14N2O3·H2O |
Mr | 228.25 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 173 |
a, b, c (Å) | 5.2814 (12), 31.795 (7), 7.0226 (16) |
β (°) | 106.392 (4) |
V (Å3) | 1131.3 (4) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.10 |
Crystal size (mm) | 0.47 × 0.44 × 0.15 |
Data collection | |
Diffractometer | Bruker SMART 1K CCD area-detector diffractometer |
Absorption correction | Multi-scan (SADABS; Sheldrick, 1996) |
Tmin, Tmax | 0.953, 0.985 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 5260, 2215, 1772 |
Rint | 0.028 |
(sin θ/λ)max (Å−1) | 0.617 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.052, 0.163, 1.14 |
No. of reflections | 2215 |
No. of parameters | 155 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.30, −0.26 |
Computer programs: SMART (Bruker,1999), SAINT-Plus (Bruker, 1999), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008).
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3···O4i | 0.84 | 1.83 | 2.669 (3) | 172.7 |
N2—H2···O4ii | 0.88 | 2.28 | 3.091 (3) | 154.1 |
O4—H4A···O1iii | 0.96 (3) | 1.79 (3) | 2.737 (2) | 170 (3) |
O4—H4B···O2iv | 0.81 (3) | 2.08 (4) | 2.863 (3) | 164 (3) |
Symmetry codes: (i) x−1, y, z; (ii) −x+1, −y+1, −z+1; (iii) −x+1, −y+1, −z; (iv) −x, −y+1, −z. |
Acknowledgements
We thank the Natural Science Foundation of Guangdong Province, China (No. 06300581) for generously supporting this study.
References
Banwell, M. G., Hamel, E., Hockless, D. C. R., Verdier-Pinard, P., Willis, A. C. & Wong, D. J. (2006). Bioorg. Med. Chem. 14, 4627–4638. Web of Science CrossRef PubMed CAS Google Scholar
Bruker (1999). SMART and SAINT-Plus. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Liu, J. F., Guo, S. P. & Jiang, B. (2005). Chin. J. Org. Chem. 25, 788–799. CAS Google Scholar
Liu, P.-R., Zeng, X.-C. & Xu, S.-H. (2006). Acta Cryst. E62, o1181–o1183. Web of Science CSD CrossRef IUCr Journals Google Scholar
Sheldrick, G. M. (1996). SADABS. University of Göttingen, Germany. Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Sosa, A. C. B., Yakushijin, K. & Horne, D. A. (2002). J. Org. Chem. 67, 4498–4500. Web of Science CrossRef PubMed CAS Google Scholar
Tang, G. H., Li, D. D., Zeng, X. C., Dong, S. S. & Wang, Y. S. (2008). Acta Cryst. E64, o1867. Web of Science CSD CrossRef IUCr Journals Google Scholar
Zeng, X.-C., Xu, S.-H., Liu, P.-R. & Gu, J. (2005). Acta Cryst. E61, o1076–o1078. CSD CrossRef IUCr Journals 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.
Pyrrole derivatives are well known constituents of many marine organisms (Liu et al., 2005), and some of them show important bioactivities, such as antitumor (Banwell et al., 2006) and protein kinase inhibiting (Sosa et al., 2002) activities. As a continuation of our studies in this field, which have recently resulted in the communication of the crystal structure of 3-(4-bromo-1H-pyrrole-2-carboxamido)propanoic acid (Zeng et al., 2005), 3-(1-methyl-1H-pyrrole-2-carboxamido)propanoic acid (Liu et al., 2006) and methyl 2-(1H-pyrrole-2-carboxamido)acetate (Tang et al., 2008), we report herein the synthesis and crystal structure of the title compound.
In the molecule of the title compound (Fig. 1), bond lengths and angles are unexceptional. In the crystal structure, molecules are linked by intermolecular O—H···O and N—H···O hydrogen bonds (Table 1) involving water molecules to form two-dimensional layers parallel to the ac plane (Fig. 2, Fig. 3)