Literature DB >> 22058749

Hydrogen-bond inter-actions in morpholinium bromide.

Kamentheren Padayachy1, Zolani Mgcima, Manuel A Fernandes, Helder M Marques, Alvaro S de Sousa.   

Abstract

In the title compound, C(4)H(10)NO(+)·Br(-), which was synthesized by dehydration of diethano-lamine with HBr, morpholinium and bromide ions are linked into chains by N-H⋯Br hydrogen bonds describing a C(2) (1)(4) graph-set motif. Weaker bifurcated N-H⋯Br inter-actions join centrosymmetrically related chains through alternating binary graph-set R(4) (2)(8) and R(2) (2)(4) motifs, to form ladders along [100]. In addition, C-H⋯O inter-actions between centrosymmetric morpholinium cations link ladders, via[Formula: see text](8) motifs, to yield sheets parallel to (101), which in turn are crosslinked by weak C-H⋯O inter-actions, related across a glide plane, to form a three-dimensional network.

Entities:  

Year:  2011        PMID: 22058749      PMCID: PMC3201370          DOI: 10.1107/S1600536811035598

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


Related literature

For the structures of related morpholinium salts, see: Loehlin & Okasako (2007 ▶); Mafud et al. (2011 ▶); Swaminathan et al. (1976 ▶); Koroniak et al. (2000 ▶); Turnbull (1997 ▶); Mazur et al. (2007 ▶); Yao (2010 ▶); Christensen et al. (1993 ▶). For the synthesis, see: Pettit et al. (1964 ▶). For the graph-set analysis, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C4H10NOBr M = 168.04 Monoclinic, a = 6.1247 (2) Å b = 10.3063 (3) Å c = 10.1141 (3) Å β = 100.312 (2)° V = 628.12 (3) Å3 Z = 4 Mo Kα radiation μ = 6.44 mm−1 T = 173 K 0.40 × 0.20 × 0.09 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: integration (face indexed absorption corrections carried out with XPREP; Sheldrick, 2008 ▶) T min = 0.183, T max = 0.595 11662 measured reflections 1516 independent reflections 1314 reflections with I > 2σ(I) R int = 0.210

Refinement

R[F 2 > 2σ(F 2)] = 0.039 wR(F 2) = 0.100 S = 1.03 1516 reflections 64 parameters H-atom parameters constrained Δρmax = 1.07 e Å−3 Δρmin = −1.38 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: APEX2; data reduction: SAINT-Plus (Bruker, 2005 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶) and WinGX (Farrugia, 1997 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: SHELXTL. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811035598/lr2027sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811035598/lr2027Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811035598/lr2027Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C4H10NO+·BrF(000) = 336
Mr = 168.04Dx = 1.777 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 5677 reflections
a = 6.1247 (2) Åθ = 2.9–28.3°
b = 10.3063 (3) ŵ = 6.44 mm1
c = 10.1141 (3) ÅT = 173 K
β = 100.312 (2)°Needle, colourless
V = 628.12 (3) Å30.40 × 0.20 × 0.09 mm
Z = 4
Bruker APEXII CCD area-detector diffractometer1516 independent reflections
Radiation source: fine-focus sealed tube1314 reflections with I > 2σ(I)
graphiteRint = 0.210
φ and ω scansθmax = 28.0°, θmin = 2.9°
Absorption correction: integration (face indexed absorption corrections carried out with XPREP; Sheldrick, 2008)h = −8→8
Tmin = 0.183, Tmax = 0.595k = −13→13
11662 measured 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)] = 0.039Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.100H-atom parameters constrained
S = 1.03w = 1/[σ2(Fo2) + (0.0518P)2] where P = (Fo2 + 2Fc2)/3
1516 reflections(Δ/σ)max = 0.002
64 parametersΔρmax = 1.07 e Å3
0 restraintsΔρmin = −1.38 e Å3
Experimental. Intensity data were collected on a Bruker APEX II CCD area detector diffractometer with graphite monochromated Mo Kα radiation (50 kV, 30 mA) using the APEX 2 (Bruker, 2005) data collection software. The collection method involved ω-scans of width 0.5° and 512 x 512 bit data frames. Data reduction was carried out using the program SAINT-Plus (Bruker, 2005). The crystal structure was solved by direct methods using SHELXTL (Sheldrick, 2008). Non-hydrogen atoms were first refined isotropically followed by anisotropic refinement by full matrix least-squares calculations based on F2 using SHELXTL.
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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
Br10.74904 (4)0.11971 (3)0.07284 (3)0.02454 (16)
O10.2489 (4)0.10940 (17)0.4694 (3)0.0263 (5)
N10.2813 (4)0.0830 (2)0.1937 (2)0.0199 (5)
H1A0.37390.07580.13180.024*
H1B0.13720.08080.14800.024*
C10.3228 (5)0.2082 (3)0.2657 (3)0.0243 (6)
H1C0.27880.28070.20240.029*
H1D0.48310.21700.30260.029*
C40.3199 (5)−0.0280 (3)0.2893 (3)0.0246 (6)
H4A0.4801−0.03470.32720.029*
H4B0.2732−0.10980.24100.029*
C20.1926 (5)0.2149 (3)0.3781 (3)0.0273 (6)
H2A0.22410.29800.42680.033*
H2B0.03190.21190.34040.033*
C30.1915 (5)−0.0094 (3)0.4004 (3)0.0272 (6)
H3A0.0308−0.00950.36280.033*
H3B0.2221−0.08240.46460.033*
U11U22U33U12U13U23
Br10.0153 (2)0.0332 (2)0.0242 (2)−0.00109 (9)0.00118 (14)−0.00764 (10)
O10.0358 (13)0.0301 (11)0.0127 (10)0.0010 (8)0.0031 (9)0.0004 (7)
N10.0159 (11)0.0289 (11)0.0147 (11)0.0018 (8)0.0021 (9)−0.0013 (8)
C10.0259 (14)0.0220 (13)0.0238 (14)−0.0055 (10)0.0014 (11)0.0010 (10)
C40.0274 (14)0.0238 (14)0.0213 (14)0.0042 (10)0.0014 (11)−0.0004 (10)
C20.0336 (16)0.0246 (14)0.0225 (15)0.0050 (11)0.0018 (13)−0.0047 (11)
C30.0340 (15)0.0245 (14)0.0230 (14)−0.0033 (11)0.0053 (12)0.0037 (11)
O1—C31.422 (3)C1—H1D0.9900
O1—C21.428 (3)C4—C31.495 (4)
N1—C11.481 (3)C4—H4A0.9900
N1—C41.490 (3)C4—H4B0.9900
N1—H1A0.9200C2—H2A0.9900
N1—H1B0.9200C2—H2B0.9900
C1—C21.502 (4)C3—H3A0.9900
C1—H1C0.9900C3—H3B0.9900
C3—O1—C2109.1 (2)N1—C4—H4B109.6
C1—N1—C4110.9 (2)C3—C4—H4B109.6
C1—N1—H1A109.5H4A—C4—H4B108.1
C4—N1—H1A109.5O1—C2—C1110.8 (2)
C1—N1—H1B109.5O1—C2—H2A109.5
C4—N1—H1B109.5C1—C2—H2A109.5
H1A—N1—H1B108.1O1—C2—H2B109.5
N1—C1—C2110.1 (2)C1—C2—H2B109.5
N1—C1—H1C109.6H2A—C2—H2B108.1
C2—C1—H1C109.6O1—C3—C4111.3 (2)
N1—C1—H1D109.6O1—C3—H3A109.4
C2—C1—H1D109.6C4—C3—H3A109.4
H1C—C1—H1D108.1O1—C3—H3B109.4
N1—C4—C3110.2 (2)C4—C3—H3B109.4
N1—C4—H4A109.6H3A—C3—H3B108.0
C3—C4—H4A109.6
C4—N1—C1—C2−52.4 (3)N1—C1—C2—O157.9 (3)
C1—N1—C4—C352.1 (3)C2—O1—C3—C462.3 (3)
C3—O1—C2—C1−62.4 (3)N1—C4—C3—O1−57.4 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1A···Br10.922.523.331 (2)148
N1—H1A···Br1i0.922.893.389 (2)115
N1—H1B···Br1ii0.922.403.292 (2)164
C4—H4A···O1iii0.992.523.366 (4)143
C1—H1C···O1iv0.992.593.498 (4)152
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1A⋯Br10.922.523.331 (2)148
N1—H1A⋯Br1i0.922.893.389 (2)115
N1—H1B⋯Br1ii0.922.403.292 (2)164
C4—H4A⋯O1iii0.992.523.366 (4)143
C1—H1C⋯O1iv0.992.593.498 (4)152

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

  5 in total

1.  Analysis of structures with saturated hydrogen bonding.

Authors:  James H Loehlin; Elizabeth L N Okasako
Journal:  Acta Crystallogr B       Date:  2007-01-15

2.  A short history of SHELX.

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

3.  4-Methyl-morpholinium bromide.

Authors:  Ji-Yuan Yao
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-05-15

4.  Morpholin-4-ium morpholine-4-carbo-dithio-ate.

Authors:  Ana C Mafud; Edgar A Sanches; Maria Teresa Gambardella
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-07-13

5.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.