Literature DB >> 24826162

N-(2-Chloro-eth-yl)morpholine-4-carbox-amide.

Oguejiofo T Ujam1, Jonnie N Asegbeloyin1, Brian K Nicholson2, Pius O Ukoha1, Nkechi N Ukwueze1.   

Abstract

The title compound, C7H13ClN2O2, synthesized by the reaction of 2-chloro-ethyl iso-cyanate and morpholine, crystallizes with four molecules in the asymmetric unit, which have similar conformations and comprise two pairs each related by approximate non-crystallographic inversion centres. Two of them have a modest orientational disorder of the 2-chloro-ethyl fragments [occupancy ratio of 0.778 (4):0.222 (4)]. In the crystal, mol-ecules are linked by N-H⋯O=C hydrogen bonds, forming three crystallographically different kinds of infinite hydrogen-bonded chains extending along [001].

Entities:  

Year:  2014        PMID: 24826162      PMCID: PMC3998621          DOI: 10.1107/S1600536814005832

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


Related literature

For the solution-phase preparation of substituted morpholine derivatives, see: Lainton et al. (2003 ▶). For a related thio­morpholine analogue, see: Ujam et al. (2010 ▶); Henderson et al. (2006 ▶).

Experimental

Crystal data

C7H13ClN2O2 M = 192.64 Monoclinic, a = 10.7393 (8) Å b = 33.613 (3) Å c = 9.9942 (7) Å β = 95.704 (5)° V = 3589.9 (5) Å3 Z = 16 Mo Kα radiation μ = 0.39 mm−1 T = 99 K 0.30 × 0.10 × 0.10 mm

Data collection

Siemens SMART CCD diffractometer Absorption correction: multi-scan (SADABS; Sheldrick 2003 ▶) T min = 0.892, T max = 0.962 39446 measured reflections 8451 independent reflections 5276 reflections with I > 2σ(I) R int = 0.082

Refinement

R[F 2 > 2σ(F 2)] = 0.059 wR(F 2) = 0.158 S = 1.04 8451 reflections 307 parameters 164 restraints H-atom parameters constrained Δρmax = 0.56 e Å−3 Δρmin = −0.59 e Å−3 Absolute structure: Flack (1983 ▶), 4226 Friedel pairs Absolute structure parameter: 0.38 (17) Data collection: SMART (Bruker, 2001 ▶); cell refinement: SAINT (Bruker, 2001 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012 ▶) and Mercury (Macrae et al., 2006 ▶); software used to prepare material for publication: WinGX (Farrugia, 2012 ▶). Crystal structure: contains datablock(s) I. DOI: 10.1107/S1600536814005832/qk2064sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536814005832/qk2064Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S1600536814005832/qk2064Isup3.mol Click here for additional data file. Supporting information file. DOI: 10.1107/S1600536814005832/qk2064Isup4.cml CCDC reference: 991972 Additional supporting information: crystallographic information; 3D view; checkCIF report
C7H13ClN2O2F(000) = 1632
Mr = 192.64Dx = 1.426 Mg m3
Monoclinic, CcMo Kα radiation, λ = 0.71073 Å
a = 10.7393 (8) ÅCell parameters from 3770 reflections
b = 33.613 (3) Åθ = 2–27°
c = 9.9942 (7) ŵ = 0.39 mm1
β = 95.704 (5)°T = 99 K
V = 3589.9 (5) Å3Needle, colourless
Z = 160.30 × 0.10 × 0.10 mm
Siemens SMART CCD diffractometer5276 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.082
ω scansθmax = 27.8°, θmin = 1.2°
Absorption correction: multi-scan (SADABS; Sheldrick 2003)h = −14→14
Tmin = 0.892, Tmax = 0.962k = −43→44
39446 measured reflectionsl = −13→13
8451 independent reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.059H-atom parameters constrained
wR(F2) = 0.158w = 1/[σ2(Fo2) + (0.0582P)2 + 2.927P] where P = (Fo2 + 2Fc2)/3
S = 1.04(Δ/σ)max = 0.001
8451 reflectionsΔρmax = 0.56 e Å3
307 parametersΔρmin = −0.59 e Å3
164 restraintsAbsolute structure: Flack (1983), 4226 Friedel pairs
Primary atom site location: structure-invariant direct methodsAbsolute structure parameter: 0.38 (17)
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. Refined as a 2-component inversion twin (here a polar twin) with a component ratio of 0.38/0.62. The final refinement restrained the four independent molecules to similar geometry using the SAME command of SHELXL, and EADP constraints were applied to equivalent atom pairs related by pseudosymmetry. Some residual electron density appeared to arise from partial disorder of the ethylene groups of two of the molecules over two sites (0.78:0.22) so the C atoms of the minor component were included with fixed isotropic thermal parameters.
xyzUiso*/UeqOcc. (<1)
C10.1793 (6)0.69065 (18)0.5906 (7)0.0257 (6)
H1A0.24290.66940.58860.031*
H1B0.19070.70950.51680.031*
C20.0503 (6)0.67256 (17)0.5692 (6)0.0295 (6)
H2A−0.01330.69400.56150.035*
H2B0.04200.65720.48430.035*
C30.0387 (5)0.66860 (16)0.8026 (6)0.0299 (6)
H3A0.02110.65050.87670.036*
H3B−0.02440.69010.79730.036*
C40.1672 (5)0.68631 (15)0.8331 (6)0.0245 (6)
H4A0.17010.70250.91610.029*
H4B0.23000.66480.84780.029*
C50.2610 (4)0.74577 (14)0.7460 (5)0.0216 (5)
C60.3614 (4)0.80530 (13)0.6609 (5)0.0241 (6)
H6A0.33230.81900.73970.029*
H6B0.34230.82250.58100.029*
C70.4988 (4)0.79800 (13)0.6835 (6)0.0317 (7)
H7A0.52720.78290.60700.038*
H7B0.51870.78220.76660.038*
N10.1972 (4)0.71155 (12)0.7195 (5)0.0201 (5)
N20.2967 (4)0.76644 (11)0.6398 (4)0.0308 (5)
H2C0.2820 (5)0.7572 (2)0.5612 (18)0.030*
O10.0284 (3)0.64694 (11)0.6785 (4)0.0297 (4)
O20.2846 (3)0.75889 (10)0.8630 (4)0.0292 (4)
Cl10.57778 (12)0.84633 (4)0.69906 (14)0.0372 (2)
C80.6779 (6)0.56216 (18)1.0240 (7)0.0257 (6)
H8A0.66540.54391.09930.031*
H8B0.61270.58301.02100.031*
C90.8058 (6)0.58091 (17)1.0459 (6)0.0295 (6)
H9A0.81080.59711.12910.035*
H9B0.86950.55961.05920.035*
C100.8262 (5)0.58296 (16)0.8153 (6)0.0299 (6)
H10A0.89000.56160.82370.036*
H10B0.84450.60050.74010.036*
C110.6986 (5)0.56463 (15)0.7835 (6)0.0245 (6)
H11A0.63520.58590.76610.029*
H11B0.69790.54810.70160.029*
C120.5946 (4)0.50722 (14)0.8711 (5)0.0216 (5)
C130.4970 (5)0.44776 (15)0.9575 (6)0.0241 (6)0.778 (4)
H13A0.51500.43131.03930.029*
H13B0.53100.43400.88150.029*
C140.3576 (5)0.45371 (16)0.9277 (7)0.0317 (7)0.778 (4)
H14A0.33930.46830.84200.038*
H14B0.32490.46941.00040.038*
N30.6675 (4)0.54001 (12)0.8967 (5)0.0201 (5)
N40.5548 (4)0.48731 (11)0.9778 (4)0.0308 (5)
H4C0.5635 (4)0.4978 (3)1.0565 (18)0.030*
O30.8346 (3)0.60560 (10)0.9370 (4)0.0297 (4)
O40.5687 (3)0.49474 (11)0.7551 (4)0.0292 (4)
Cl20.28368 (12)0.40510 (4)0.91603 (15)0.0372 (2)
C150.1664 (6)0.81124 (18)0.0959 (7)0.0268 (6)
H15A0.18300.79400.01940.032*
H15B0.22690.83350.10030.032*
C160.0353 (6)0.82743 (18)0.0734 (6)0.0317 (6)
H16A0.02730.8440−0.00890.038*
H16B−0.02440.80500.05920.038*
C170.0137 (5)0.82715 (16)0.3030 (6)0.0283 (6)
H17A−0.04650.80480.29150.034*
H17B−0.00880.84370.37900.034*
C180.1445 (5)0.81076 (16)0.3359 (6)0.0245 (6)
H18A0.20350.83300.35800.029*
H18B0.14610.79320.41560.029*
C190.2757 (4)0.76025 (14)0.2480 (5)0.0220 (5)
C200.4416 (4)0.71961 (12)0.1643 (5)0.0251 (6)
H20A0.49280.72830.24700.030*
H20B0.49290.72260.08790.030*
C210.4066 (4)0.67709 (12)0.1778 (6)0.0270 (6)
H21A0.35540.66800.09560.032*
H21B0.35710.67360.25540.032*
N50.1841 (4)0.78819 (12)0.2215 (5)0.0199 (4)
N60.3293 (4)0.74516 (11)0.1419 (4)0.0298 (5)
H6C0.2982 (8)0.75040 (16)0.0619 (18)0.030*
O50.0041 (4)0.85058 (10)0.1835 (4)0.0321 (4)
O60.3081 (3)0.74858 (11)0.3645 (4)0.0281 (4)
Cl30.55040 (11)0.64849 (4)0.20263 (14)0.03441 (18)
C220.6776 (6)0.94101 (19)0.5227 (7)0.0268 (6)
H22A0.61750.91860.51900.032*
H22B0.66050.95860.59810.032*
C230.8101 (6)0.92532 (18)0.5449 (6)0.0317 (6)
H23A0.86900.94800.55570.038*
H23B0.81990.90950.62890.038*
C240.8292 (5)0.92350 (16)0.3134 (6)0.0283 (6)
H24A0.85020.90640.23820.034*
H24B0.88950.94590.32160.034*
C250.6977 (5)0.93984 (16)0.2819 (6)0.0245 (6)
H25A0.69420.95680.20060.029*
H25B0.63800.91760.26370.029*
C260.5745 (5)0.99248 (14)0.3691 (5)0.0220 (5)
C270.4059 (5)1.03184 (15)0.4504 (6)0.0251 (6)0.778 (4)
H27A0.35351.02780.52540.030*
H27B0.35741.02320.36600.030*
C280.4398 (5)1.07526 (15)0.4409 (6)0.0270 (6)0.778 (4)
H28A0.48971.07960.36410.032*
H28B0.49001.08390.52420.032*
N70.6630 (4)0.96323 (12)0.3958 (5)0.0199 (4)
N80.5208 (4)1.00824 (11)0.4736 (4)0.0298 (5)
H8C0.5529 (8)1.00457 (14)0.5510 (18)0.030*
O70.8412 (4)0.90094 (10)0.4351 (4)0.0321 (4)
O80.5435 (3)1.00387 (11)0.2531 (4)0.0281 (4)
Cl40.29550 (11)1.10319 (3)0.41732 (14)0.03441 (18)
C13A0.421 (2)0.4712 (5)0.954 (2)0.030*0.222 (4)
C14A0.442 (2)0.4253 (5)0.939 (2)0.030*0.222 (4)
C27A0.4955 (18)1.0541 (6)0.460 (2)0.030*0.222 (4)
C28A0.3506 (17)1.0513 (6)0.427 (2)0.030*0.222 (4)
U11U22U33U12U13U23
C10.0285 (14)0.0265 (13)0.0224 (14)−0.0047 (11)0.0047 (11)−0.0045 (11)
C20.0326 (15)0.0302 (14)0.0251 (15)−0.0090 (12)0.0001 (11)0.0000 (11)
C30.0297 (15)0.0330 (13)0.0280 (15)−0.0047 (12)0.0074 (12)0.0043 (11)
C40.0281 (15)0.0246 (12)0.0203 (13)−0.0047 (11)0.0006 (11)0.0037 (10)
C50.0194 (12)0.0249 (12)0.0204 (13)0.0015 (10)0.0019 (10)0.0010 (10)
C60.0223 (14)0.0251 (14)0.0244 (14)0.0013 (12)0.0005 (11)0.0010 (11)
C70.0235 (15)0.0299 (14)0.0420 (18)0.0007 (12)0.0056 (13)0.0004 (13)
N10.0217 (12)0.0223 (10)0.0170 (11)−0.0050 (9)0.0049 (9)−0.0001 (8)
N20.0403 (13)0.0351 (12)0.0168 (11)−0.0182 (10)0.0019 (9)−0.0016 (9)
O10.0318 (11)0.0288 (9)0.0282 (11)−0.0122 (8)0.0021 (8)0.0027 (8)
O20.0414 (11)0.0290 (9)0.0172 (9)−0.0094 (8)0.0037 (8)−0.0030 (7)
Cl10.0332 (4)0.0381 (4)0.0398 (4)−0.0168 (3)0.0012 (3)−0.0013 (3)
C80.0285 (14)0.0265 (13)0.0224 (14)−0.0047 (11)0.0047 (11)−0.0045 (11)
C90.0326 (15)0.0302 (14)0.0251 (15)−0.0090 (12)0.0001 (11)0.0000 (11)
C100.0297 (15)0.0330 (13)0.0280 (15)−0.0047 (12)0.0074 (12)0.0043 (11)
C110.0281 (15)0.0246 (12)0.0203 (13)−0.0047 (11)0.0006 (11)0.0037 (10)
C120.0194 (12)0.0249 (12)0.0204 (13)0.0015 (10)0.0019 (10)0.0010 (10)
C130.0223 (14)0.0251 (14)0.0244 (14)0.0013 (12)0.0005 (11)0.0010 (11)
C140.0235 (15)0.0299 (14)0.0420 (18)0.0007 (12)0.0056 (13)0.0004 (13)
N30.0217 (12)0.0223 (10)0.0170 (11)−0.0050 (9)0.0049 (9)−0.0001 (8)
N40.0403 (13)0.0351 (12)0.0168 (11)−0.0182 (10)0.0019 (9)−0.0016 (9)
O30.0318 (11)0.0288 (9)0.0282 (11)−0.0122 (8)0.0021 (8)0.0027 (8)
O40.0414 (11)0.0290 (9)0.0172 (9)−0.0094 (8)0.0037 (8)−0.0030 (7)
Cl20.0332 (4)0.0381 (4)0.0398 (4)−0.0168 (3)0.0012 (3)−0.0013 (3)
C150.0322 (16)0.0287 (13)0.0202 (14)0.0083 (12)0.0063 (11)0.0035 (10)
C160.0370 (16)0.0325 (14)0.0244 (15)0.0131 (12)−0.0034 (12)−0.0021 (11)
C170.0247 (14)0.0296 (13)0.0310 (15)0.0063 (11)0.0056 (11)−0.0024 (11)
C180.0249 (14)0.0261 (12)0.0227 (14)0.0040 (11)0.0042 (11)−0.0027 (10)
C190.0245 (13)0.0234 (12)0.0185 (13)−0.0012 (10)0.0043 (10)−0.0012 (10)
C200.0209 (15)0.0286 (13)0.0271 (15)−0.0016 (12)0.0082 (11)−0.0033 (11)
C210.0211 (15)0.0274 (14)0.0322 (16)−0.0013 (12)0.0005 (12)−0.0019 (12)
N50.0233 (11)0.0192 (9)0.0175 (11)0.0023 (8)0.0028 (8)0.0001 (8)
N60.0396 (13)0.0344 (11)0.0156 (11)0.0191 (10)0.0035 (9)0.0012 (9)
O50.0360 (11)0.0303 (9)0.0293 (11)0.0126 (8)0.0001 (8)−0.0031 (8)
O60.0343 (10)0.0338 (9)0.0163 (9)0.0116 (8)0.0031 (7)0.0021 (7)
Cl30.0318 (4)0.0353 (3)0.0355 (4)0.0150 (3)0.0002 (3)−0.0016 (3)
C220.0322 (16)0.0287 (13)0.0202 (14)0.0083 (12)0.0063 (11)0.0035 (10)
C230.0370 (16)0.0325 (14)0.0244 (15)0.0131 (12)−0.0034 (12)−0.0021 (11)
C240.0247 (14)0.0296 (13)0.0310 (15)0.0063 (11)0.0056 (11)−0.0024 (11)
C250.0249 (14)0.0261 (12)0.0227 (14)0.0040 (11)0.0042 (11)−0.0027 (10)
C260.0245 (13)0.0234 (12)0.0185 (13)−0.0012 (10)0.0043 (10)−0.0012 (10)
C270.0209 (15)0.0286 (13)0.0271 (15)−0.0016 (12)0.0082 (11)−0.0033 (11)
C280.0211 (15)0.0274 (14)0.0322 (16)−0.0013 (12)0.0005 (12)−0.0019 (12)
N70.0233 (11)0.0192 (9)0.0175 (11)0.0023 (8)0.0028 (8)0.0001 (8)
N80.0396 (13)0.0344 (11)0.0156 (11)0.0191 (10)0.0035 (9)0.0012 (9)
O70.0360 (11)0.0303 (9)0.0293 (11)0.0126 (8)0.0001 (8)−0.0031 (8)
O80.0343 (10)0.0338 (9)0.0163 (9)0.0116 (8)0.0031 (7)0.0021 (7)
Cl40.0318 (4)0.0353 (3)0.0355 (4)0.0150 (3)0.0002 (3)−0.0016 (3)
C1—N11.463 (6)C15—C161.506 (7)
C1—C21.509 (7)C16—O51.415 (6)
C2—O11.429 (6)C17—O51.426 (6)
C3—O11.433 (6)C17—C181.514 (6)
C3—C41.506 (6)C18—N51.470 (6)
C4—N11.478 (6)C19—O61.244 (6)
C5—O21.252 (6)C19—N61.354 (6)
C5—N11.352 (6)C19—N51.367 (6)
C5—N21.355 (6)C20—N61.480 (5)
C6—N21.485 (5)C20—C211.487 (5)
C6—C71.491 (5)C21—Cl31.815 (5)
C7—Cl11.832 (4)C22—N71.467 (6)
C8—N31.469 (6)C22—C231.513 (7)
C8—C91.507 (7)C23—O71.435 (6)
C9—O31.427 (6)C24—O71.428 (6)
C10—O31.430 (6)C24—C251.519 (6)
C10—C111.507 (6)C25—N71.462 (6)
C11—N31.466 (6)C26—O81.235 (5)
C12—O41.239 (6)C26—N81.351 (6)
C12—N31.362 (6)C26—N71.375 (6)
C12—N41.362 (6)C27—N81.466 (6)
C13—N41.473 (6)C27—C281.509 (7)
C13—C141.510 (7)C28—Cl41.807 (5)
C14—Cl21.815 (5)C13A—C14A1.568 (16)
C15—N51.471 (6)C27A—C28A1.561 (17)
N1—C1—C2110.9 (5)N5—C15—C16110.9 (5)
O1—C2—C1110.7 (5)O5—C16—C15111.9 (5)
O1—C3—C4111.5 (5)O5—C17—C18111.8 (5)
N1—C4—C3109.7 (5)N5—C18—C17110.7 (5)
O2—C5—N1122.3 (5)O6—C19—N6120.9 (4)
O2—C5—N2120.3 (4)O6—C19—N5121.8 (5)
N1—C5—N2117.4 (5)N6—C19—N5117.3 (5)
N2—C6—C7108.6 (4)N6—C20—C21111.2 (4)
C6—C7—Cl1108.0 (3)C20—C21—Cl3107.6 (3)
C5—N1—C1126.9 (5)C19—N5—C18117.6 (5)
C5—N1—C4118.9 (5)C19—N5—C15123.8 (5)
C1—N1—C4112.4 (4)C18—N5—C15111.6 (4)
C5—N2—C6120.3 (4)C19—N6—C20120.1 (4)
C2—O1—C3110.6 (4)C16—O5—C17110.2 (4)
N3—C8—C9109.1 (5)N7—C22—C23108.8 (5)
O3—C9—C8113.4 (5)O7—C23—C22112.0 (5)
O3—C10—C11112.1 (5)O7—C24—C25111.8 (5)
N3—C11—C10109.9 (5)N7—C25—C24109.7 (5)
O4—C12—N3121.4 (5)O8—C26—N8120.5 (4)
O4—C12—N4120.5 (4)O8—C26—N7121.4 (5)
N3—C12—N4118.1 (5)N8—C26—N7118.0 (5)
N4—C13—C14107.7 (4)N8—C27—C28109.2 (4)
C13—C14—Cl2108.2 (4)C27—C28—Cl4107.5 (4)
C12—N3—C11118.9 (5)C26—N7—C25117.3 (5)
C12—N3—C8124.4 (5)C26—N7—C22123.0 (5)
C11—N3—C8112.3 (4)C25—N7—C22112.7 (4)
C12—N4—C13119.8 (4)C26—N8—C27120.5 (4)
C9—O3—C10109.8 (4)C24—O7—C23109.9 (4)
D—H···AD—HH···AD···AD—H···A
N2—H2C···O60.852.032.831 (6)157
N4—H4C···O4i0.862.002.826 (6)162
N6—H6C···O2ii0.852.002.819 (6)161
N8—H8C···O8iii0.822.052.809 (6)153
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H2C⋯O60.852.032.831 (6)157
N4—H4C⋯O4i 0.862.002.826 (6)162
N6—H6C⋯O2ii 0.852.002.819 (6)161
N8—H8C⋯O8iii 0.822.052.809 (6)153

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

  2 in total

1.  Design and synthesis of a diverse morpholine template library.

Authors:  Julia A H Lainton; Mark C Allen; Matthew Burton; Stuart Cameron; Timothy R G Edwards; Grahame Harden; Rebecca Hogg; Wilson Leung; Steven Miller; Joseph J Morrish; Stuart M Rooke; Bernd Wendt
Journal:  J Comb Chem       Date:  2003 Jul-Aug

2.  A short history of SHELX.

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

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1.  Experimental and In-Silico Investigation of Anti-Microbial Activity of 1-Chloro-2-Isocyanatoethane Derivatives of Thiomorpholine, Piperazine and Morpholine.

Authors:  Charles O Nwuche; Oguejiofo T Ujam; Akachukwu Ibezim; Ifeoma B Ujam
Journal:  PLoS One       Date:  2017-01-20       Impact factor: 3.240

  1 in total

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