Literature DB >> 23476249

Morpholine-4-carboxamidinium ethyl carbonate.

Ioannis Tiritiris1.   

Abstract

The asymmetric unit of the title salt, C5H12N3O(+)·C3H5O3(-), contains two carboxamidinium and two ethyl carbonate ions. In the crystal, the C-N bond lengths in the central CN3 units of the cations range between 1.324 (2) and 1.352 (2) Å, indicating partial double-bond character. The central C atoms are bonded to the three N atoms in a nearly ideal trigonal-planar geometry and the positive charges are delocalized in the CN3 planes. The morpholine rings are in chair conformations. The C-O bond lengths in both ethyl carbonate ions are characteristic for delocalized double bonds [1.243 (2)-1.251 (2) Å] and typical single bonds [1.368 (2) and 1.375 (2) Å]. In the crystal, N-H⋯O hydrogen bonds between cations and anions generate a two-dimensional network in the ac plane.

Entities:  

Year:  2012        PMID: 23476249      PMCID: PMC3589013          DOI: 10.1107/S1600536812046922

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the synthesis and crystal structures of guanidinium hydrogen carbonates, see: Tiritiris et al. (2011 ▶). For the crystal structure of 4-morpholine­carboxamidine, see: Tiritiris (2012a ▶). For the crystal structure of piperidine-1-carboxamidinium ethyl carbonate, see: Tiritiris (2012b ▶).

Experimental

Crystal data

C5H12N3O+·C3H5O3 M = 219.25 Monoclinic, a = 10.2163 (5) Å b = 20.8874 (9) Å c = 10.4616 (5) Å β = 109.505 (2)° V = 2104.31 (17) Å3 Z = 8 Mo Kα radiation μ = 0.11 mm−1 T = 100 K 0.30 × 0.25 × 0.15 mm

Data collection

Bruker–Nonius KappaCCD diffractometer 9902 measured reflections 5199 independent reflections 2981 reflections with I > 2σ(I) R int = 0.055

Refinement

R[F 2 > 2σ(F 2)] = 0.050 wR(F 2) = 0.112 S = 1.00 5199 reflections 305 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.25 e Å−3 Δρmin = −0.30 e Å−3 Data collection: COLLECT (Hooft, 2004 ▶); cell refinement: SCALEPACK (Otwinowski & Minor, 1997 ▶); data reduction: SCALEPACK; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: DIAMOND (Brandenburg & Putz, 2005 ▶); software used to prepare material for publication: SHELXL97. Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812046922/kp2441sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812046922/kp2441Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H12N3O+·C3H5O3F(000) = 944
Mr = 219.25Dx = 1.384 Mg m3
Monoclinic, P21/nMelting point: 413 K
Hall symbol: -P 2ynMo Kα radiation, λ = 0.71073 Å
a = 10.2163 (5) ÅCell parameters from 5142 reflections
b = 20.8874 (9) Åθ = 0.4–28.3°
c = 10.4616 (5) ŵ = 0.11 mm1
β = 109.505 (2)°T = 100 K
V = 2104.31 (17) Å3Block, colourless
Z = 80.30 × 0.25 × 0.15 mm
Bruker–Nonius KappaCCD diffractometer2981 reflections with I > 2σ(I)
Radiation source: sealed tubeRint = 0.055
Graphite monochromatorθmax = 28.3°, θmin = 2.3°
φ scans, and ω scansh = −13→13
9902 measured reflectionsk = −27→27
5199 independent reflectionsl = −13→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.050Hydrogen site location: difference Fourier map
wR(F2) = 0.112H atoms treated by a mixture of independent and constrained refinement
S = 1.00w = 1/[σ2(Fo2) + (0.0468P)2] where P = (Fo2 + 2Fc2)/3
5199 reflections(Δ/σ)max < 0.001
305 parametersΔρmax = 0.25 e Å3
0 restraintsΔρmin = −0.30 e Å3
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.
xyzUiso*/Ueq
C10.14782 (18)0.19683 (9)0.08078 (17)0.0138 (4)
N10.14407 (18)0.21777 (9)−0.03987 (16)0.0186 (4)
H110.082 (2)0.2060 (11)−0.111 (2)0.027 (6)*
H120.209 (2)0.2468 (11)−0.039 (2)0.028 (6)*
N20.24717 (16)0.21987 (9)0.18879 (16)0.0168 (4)
H210.2567 (18)0.2083 (9)0.269 (2)0.013 (5)*
H220.308 (2)0.2486 (11)0.171 (2)0.032 (6)*
N30.05782 (14)0.15198 (8)0.09382 (13)0.0138 (3)
C20.04415 (18)0.14053 (10)0.22786 (16)0.0174 (4)
H2A−0.01060.17550.24910.021*
H2B0.13740.14040.29820.021*
C3−0.02671 (19)0.07728 (10)0.22976 (17)0.0239 (5)
H3A0.03430.04210.22030.029*
H3B−0.04100.07210.31820.029*
O1−0.15763 (13)0.07261 (7)0.12343 (12)0.0227 (3)
C4−0.13597 (19)0.07748 (10)−0.00376 (17)0.0194 (4)
H4A−0.22610.0727−0.07770.023*
H4B−0.07460.0422−0.01200.023*
C5−0.07145 (18)0.14066 (9)−0.01951 (17)0.0168 (4)
H5A−0.05150.1408−0.10580.020*
H5B−0.13790.1757−0.02330.020*
C60.61678 (17)0.19115 (9)0.08546 (16)0.0122 (4)
N40.60204 (17)0.21566 (9)−0.03589 (15)0.0161 (4)
H410.656 (2)0.2472 (11)−0.038 (2)0.026 (6)*
H420.533 (2)0.2013 (12)−0.113 (2)0.041 (7)*
N50.71439 (16)0.21538 (8)0.19268 (15)0.0144 (4)
H510.773 (2)0.2459 (11)0.185 (2)0.023 (6)*
H520.745 (2)0.1933 (11)0.271 (2)0.035 (6)*
N60.53305 (14)0.14360 (7)0.10007 (13)0.0134 (3)
C70.56842 (19)0.11205 (10)0.23299 (16)0.0176 (4)
H7A0.59060.14490.30530.021*
H7B0.65170.08500.24800.021*
C80.4493 (2)0.07110 (10)0.24096 (17)0.0189 (4)
H8A0.47910.04720.32770.023*
H8B0.37090.09910.24010.023*
O20.40359 (13)0.02701 (6)0.13163 (11)0.0198 (3)
C90.35206 (18)0.06230 (10)0.00799 (17)0.0182 (4)
H9A0.27580.09070.01170.022*
H9B0.31370.0321−0.06840.022*
C100.46389 (18)0.10203 (9)−0.01694 (17)0.0169 (4)
H10A0.53350.0734−0.03410.020*
H10B0.42260.1288−0.09860.020*
C11−0.07231 (18)0.16716 (9)0.57058 (16)0.0133 (4)
O3−0.16622 (12)0.18499 (7)0.46539 (11)0.0196 (3)
O4−0.04966 (12)0.18664 (6)0.68830 (11)0.0179 (3)
O50.01060 (12)0.11991 (7)0.54704 (11)0.0181 (3)
C120.12224 (18)0.09664 (10)0.66226 (17)0.0188 (4)
H12A0.08490.07610.72810.023*
H12B0.18360.13240.70810.023*
C130.20159 (19)0.04887 (10)0.60972 (18)0.0224 (5)
H13A0.23550.06950.54270.034*
H13B0.14050.01310.56710.034*
H13C0.28060.03280.68510.034*
C140.40406 (17)0.17608 (9)0.57044 (16)0.0130 (4)
O60.31041 (12)0.19554 (6)0.46676 (11)0.0180 (3)
O70.42103 (13)0.19133 (6)0.69029 (11)0.0183 (3)
O80.49287 (12)0.13310 (6)0.54411 (11)0.0166 (3)
C150.60379 (18)0.10913 (10)0.65905 (17)0.0179 (4)
H15A0.56550.08770.72320.021*
H15B0.66410.14480.70700.021*
C160.68612 (19)0.06219 (10)0.60715 (18)0.0199 (4)
H16A0.62700.02570.56510.030*
H16B0.76590.04700.68280.030*
H16C0.71900.08330.53980.030*
U11U22U33U12U13U23
C10.0137 (9)0.0140 (11)0.0127 (9)0.0045 (8)0.0031 (7)0.0005 (7)
N10.0180 (9)0.0236 (10)0.0114 (8)−0.0068 (8)0.0011 (7)0.0008 (7)
N20.0189 (9)0.0223 (10)0.0080 (8)−0.0050 (7)0.0031 (7)0.0016 (7)
N30.0118 (7)0.0192 (9)0.0088 (7)−0.0017 (7)0.0012 (6)−0.0003 (6)
C20.0178 (9)0.0251 (12)0.0085 (8)−0.0042 (8)0.0033 (7)−0.0007 (8)
C30.0261 (11)0.0301 (13)0.0102 (9)−0.0091 (9)−0.0011 (8)0.0013 (8)
O10.0251 (7)0.0279 (9)0.0138 (6)−0.0121 (6)0.0048 (5)−0.0029 (6)
C40.0217 (10)0.0216 (12)0.0130 (9)−0.0007 (9)0.0032 (8)−0.0024 (8)
C50.0148 (9)0.0201 (11)0.0115 (8)−0.0027 (8)−0.0007 (7)0.0001 (8)
C60.0143 (9)0.0123 (10)0.0107 (9)0.0040 (8)0.0051 (7)−0.0004 (7)
N40.0166 (8)0.0182 (10)0.0107 (8)−0.0043 (8)0.0009 (7)0.0016 (7)
N50.0164 (8)0.0145 (10)0.0103 (8)−0.0029 (7)0.0018 (6)0.0000 (6)
N60.0158 (8)0.0148 (9)0.0083 (7)−0.0017 (7)0.0023 (6)−0.0007 (6)
C70.0218 (10)0.0185 (11)0.0105 (9)−0.0053 (8)0.0027 (7)0.0016 (7)
C80.0268 (10)0.0179 (12)0.0125 (9)−0.0045 (9)0.0074 (8)−0.0022 (8)
O20.0281 (7)0.0145 (8)0.0147 (6)−0.0057 (6)0.0043 (5)−0.0011 (5)
C90.0187 (10)0.0187 (12)0.0137 (9)−0.0021 (8)0.0006 (7)0.0008 (8)
C100.0200 (10)0.0167 (11)0.0117 (8)−0.0022 (8)0.0025 (7)−0.0013 (7)
C110.0130 (9)0.0173 (11)0.0095 (9)−0.0009 (8)0.0037 (7)0.0013 (7)
O30.0191 (7)0.0258 (9)0.0101 (6)0.0043 (6)−0.0001 (5)0.0003 (5)
O40.0183 (7)0.0231 (8)0.0102 (6)0.0030 (6)0.0020 (5)−0.0016 (5)
O50.0175 (7)0.0238 (8)0.0108 (6)0.0056 (6)0.0016 (5)−0.0002 (5)
C120.0167 (10)0.0226 (12)0.0138 (9)0.0045 (8)0.0007 (7)0.0022 (8)
C130.0234 (10)0.0219 (12)0.0211 (10)0.0027 (9)0.0064 (8)0.0014 (8)
C140.0131 (9)0.0131 (11)0.0116 (9)−0.0027 (8)0.0027 (7)0.0001 (7)
O60.0179 (7)0.0231 (8)0.0101 (6)0.0050 (6)0.0010 (5)0.0010 (5)
O70.0208 (7)0.0215 (8)0.0096 (6)0.0050 (6)0.0010 (5)−0.0021 (5)
O80.0163 (7)0.0211 (8)0.0103 (6)0.0056 (6)0.0014 (5)0.0005 (5)
C150.0177 (9)0.0214 (12)0.0113 (9)0.0057 (8)0.0005 (7)0.0012 (8)
C160.0171 (10)0.0218 (12)0.0198 (10)0.0037 (8)0.0047 (8)0.0023 (8)
C1—N11.324 (2)C7—H7A0.9900
C1—N21.331 (2)C7—H7B0.9900
C1—N31.351 (2)C8—O21.420 (2)
N1—H110.84 (2)C8—H8A0.9900
N1—H120.89 (2)C8—H8B0.9900
N2—H210.85 (2)O2—C91.428 (2)
N2—H220.92 (2)C9—C101.504 (3)
N3—C51.470 (2)C9—H9A0.9900
N3—C21.474 (2)C9—H9B0.9900
C2—C31.510 (3)C10—H10A0.9900
C2—H2A0.9900C10—H10B0.9900
C2—H2B0.9900C11—O41.243 (2)
C3—O11.429 (2)C11—O31.251 (2)
C3—H3A0.9900C11—O51.375 (2)
C3—H3B0.9900O5—C121.439 (2)
O1—C41.424 (2)C12—C131.501 (3)
C4—C51.508 (3)C12—H12A0.9900
C4—H4A0.9900C12—H12B0.9900
C4—H4B0.9900C13—H13A0.9800
C5—H5A0.9900C13—H13B0.9800
C5—H5B0.9900C13—H13C0.9800
C6—N51.327 (2)C14—O71.248 (2)
C6—N41.330 (2)C14—O61.2507 (19)
C6—N61.352 (2)C14—O81.368 (2)
N4—H410.86 (2)O8—C151.4390 (19)
N4—H420.93 (2)C15—C161.506 (3)
N5—H510.90 (2)C15—H15A0.9900
N5—H520.90 (2)C15—H15B0.9900
N6—C71.471 (2)C16—H16A0.9800
N6—C101.474 (2)C16—H16B0.9800
C7—C81.512 (3)C16—H16C0.9800
N1—C1—N2117.44 (18)C8—C7—H7B109.5
N1—C1—N3121.41 (16)H7A—C7—H7B108.0
N2—C1—N3121.10 (16)O2—C8—C7112.11 (14)
C1—N1—H11121.6 (14)O2—C8—H8A109.2
C1—N1—H12115.2 (13)C7—C8—H8A109.2
H11—N1—H12123.1 (19)O2—C8—H8B109.2
C1—N2—H21122.7 (13)C7—C8—H8B109.2
C1—N2—H22116.0 (13)H8A—C8—H8B107.9
H21—N2—H22121.3 (17)C8—O2—C9108.51 (14)
C1—N3—C5119.25 (14)O2—C9—C10111.74 (14)
C1—N3—C2119.50 (14)O2—C9—H9A109.3
C5—N3—C2113.33 (13)C10—C9—H9A109.3
N3—C2—C3110.65 (14)O2—C9—H9B109.3
N3—C2—H2A109.5C10—C9—H9B109.3
C3—C2—H2A109.5H9A—C9—H9B107.9
N3—C2—H2B109.5N6—C10—C9111.24 (14)
C3—C2—H2B109.5N6—C10—H10A109.4
H2A—C2—H2B108.1C9—C10—H10A109.4
O1—C3—C2112.19 (15)N6—C10—H10B109.4
O1—C3—H3A109.2C9—C10—H10B109.4
C2—C3—H3A109.2H10A—C10—H10B108.0
O1—C3—H3B109.2O4—C11—O3127.48 (17)
C2—C3—H3B109.2O4—C11—O5119.35 (15)
H3A—C3—H3B107.9O3—C11—O5113.17 (14)
C4—O1—C3109.00 (13)C11—O5—C12117.10 (13)
O1—C4—C5112.00 (15)O5—C12—C13106.96 (14)
O1—C4—H4A109.2O5—C12—H12A110.3
C5—C4—H4A109.2C13—C12—H12A110.3
O1—C4—H4B109.2O5—C12—H12B110.3
C5—C4—H4B109.2C13—C12—H12B110.3
H4A—C4—H4B107.9H12A—C12—H12B108.6
N3—C5—C4111.13 (14)C12—C13—H13A109.5
N3—C5—H5A109.4C12—C13—H13B109.5
C4—C5—H5A109.4H13A—C13—H13B109.5
N3—C5—H5B109.4C12—C13—H13C109.5
C4—C5—H5B109.4H13A—C13—H13C109.5
H5A—C5—H5B108.0H13B—C13—H13C109.5
N5—C6—N4118.27 (17)O7—C14—O6126.70 (17)
N5—C6—N6120.64 (15)O7—C14—O8119.38 (14)
N4—C6—N6121.08 (16)O6—C14—O8113.91 (14)
C6—N4—H41116.3 (13)C14—O8—C15116.75 (12)
C6—N4—H42121.0 (14)O8—C15—C16107.70 (14)
H41—N4—H42122.5 (19)O8—C15—H15A110.2
C6—N5—H51121.8 (13)C16—C15—H15A110.2
C6—N5—H52120.7 (14)O8—C15—H15B110.2
H51—N5—H52114.0 (18)C16—C15—H15B110.2
C6—N6—C7118.09 (13)H15A—C15—H15B108.5
C6—N6—C10118.98 (14)C15—C16—H16A109.5
C7—N6—C10114.80 (15)C15—C16—H16B109.5
N6—C7—C8110.93 (14)H16A—C16—H16B109.5
N6—C7—H7A109.5C15—C16—H16C109.5
C8—C7—H7A109.5H16A—C16—H16C109.5
N6—C7—H7B109.5H16B—C16—H16C109.5
N1—C1—N3—C5−19.3 (3)N4—C6—N6—C1023.7 (2)
N2—C1—N3—C5163.26 (16)C6—N6—C7—C8167.46 (16)
N1—C1—N3—C2−166.30 (17)C10—N6—C7—C8−44.1 (2)
N2—C1—N3—C216.3 (3)N6—C7—C8—O253.4 (2)
C1—N3—C2—C3−163.24 (16)C7—C8—O2—C9−62.83 (19)
C5—N3—C2—C347.9 (2)C8—O2—C9—C1062.98 (19)
N3—C2—C3—O1−54.7 (2)C6—N6—C10—C9−167.27 (15)
C2—C3—O1—C461.1 (2)C7—N6—C10—C944.6 (2)
C3—O1—C4—C5−60.9 (2)O2—C9—C10—N6−53.8 (2)
C1—N3—C5—C4163.03 (16)O4—C11—O5—C12−1.3 (2)
C2—N3—C5—C4−48.1 (2)O3—C11—O5—C12179.62 (15)
O1—C4—C5—N354.7 (2)C11—O5—C12—C13−176.69 (15)
N5—C6—N6—C7−10.5 (2)O7—C14—O8—C15−1.3 (2)
N4—C6—N6—C7170.74 (16)O6—C14—O8—C15179.56 (15)
N5—C6—N6—C10−157.57 (16)C14—O8—C15—C16179.01 (15)
D—H···AD—HH···AD···AD—H···A
N1—H11···O4i0.84 (2)2.12 (2)2.944 (1)168 (1)
N1—H12···O3ii0.89 (2)1.91 (2)2.795 (1)174 (1)
N2—H21···O60.85 (2)1.97 (2)2.807 (1)168 (1)
N2—H22···O4ii0.92 (2)1.95 (2)2.851 (1)164 (1)
N4—H41···O6ii0.86 (2)1.97 (2)2.817 (1)167 (1)
N4—H42···O7i0.93 (2)2.00 (2)2.889 (1)159 (1)
N5—H51···O7ii0.90 (2)1.99 (2)2.879 (1)172 (1)
N5—H52···O3iii0.90 (2)1.94 (2)2.776 (1)154 (1)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H11⋯O4i 0.84 (2)2.12 (2)2.944 (1)168 (1)
N1—H12⋯O3ii 0.89 (2)1.91 (2)2.795 (1)174 (1)
N2—H21⋯O60.85 (2)1.97 (2)2.807 (1)168 (1)
N2—H22⋯O4ii 0.92 (2)1.95 (2)2.851 (1)164 (1)
N4—H41⋯O6ii 0.86 (2)1.97 (2)2.817 (1)167 (1)
N4—H42⋯O7i 0.93 (2)2.00 (2)2.889 (1)159 (1)
N5—H51⋯O7ii 0.90 (2)1.99 (2)2.879 (1)172 (1)
N5—H52⋯O3iii 0.90 (2)1.94 (2)2.776 (1)154 (1)

Symmetry codes: (i) ; (ii) ; (iii) .

  3 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  4-Morpholine-carboxamidine.

Authors:  Ioannis Tiritiris
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-13

3.  Piperidine-1-carboxamidinium ethyl carbonate.

Authors:  Ioannis Tiritiris
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-10
  3 in total

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