Literature DB >> 21754821

N-(Adamantan-1-yl)-2-chloro-acetamide.

Oluseye K Onajole, Thavendran Govender, Hendrik G Kruger, Glenn E M Maguire.   

Abstract

In the title compound, C(12)H(18)ClNO, which was synthesized as part of a study into potential anti-tuberculosis agents, the adamantine skeleton displays shorter than normal C-C bond lengths ranging between 1.5293 (18) and 1.5366 (15) Å. The structure also displays inter-molecular N-H⋯O hydrogen bonding, which forms an infinite chain in the a-axis direction.

Entities:  

Year:  2011        PMID: 21754821      PMCID: PMC3120360          DOI: 10.1107/S1600536811018046

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


Related literature

For background to the title compound, see: Plakhotnik et al. (1982 ▶). For the synthesis of the title compound, see: Lee et al. (2003 ▶); Bogatcheva et al. (2006 ▶, 2010 ▶); Onajole et al. (2010 ▶). For related polycyclic structures, see: Venkataramanan et al. (2004 ▶); Fokin et al., (2009 ▶).

Experimental

Crystal data

C12H18ClNO M = 227.72 Orthorhombic, a = 9.3656 (2) Å b = 13.7515 (3) Å c = 18.7917 (4) Å V = 2420.20 (9) Å3 Z = 8 Mo Kα radiation μ = 0.29 mm−1 T = 173 K 0.26 × 0.16 × 0.15 mm

Data collection

Nonius KappaCCD diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.928, T max = 0.958 5629 measured reflections 3003 independent reflections 2568 reflections with I > 2σ(I) R int = 0.007

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.106 S = 1.05 3003 reflections 137 parameters H-atom parameters constrained Δρmax = 0.26 e Å−3 Δρmin = −0.33 e Å−3 Data collection: COLLECT (Nonius, 2000 ▶); cell refinement: DENZO-SMN; data reduction: DENZO-SMN (Otwinowski & Minor, 1997 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: OLEX2 (Dolomanov et al., 2009 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811018046/nk2092sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811018046/nk2092Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811018046/nk2092Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C12H18ClNOF(000) = 976
Mr = 227.72Dx = 1.250 Mg m3
Orthorhombic, PbcaMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ac 2abCell parameters from 5629 reflections
a = 9.3656 (2) Åθ = 3.0–28.3°
b = 13.7515 (3) ŵ = 0.29 mm1
c = 18.7917 (4) ÅT = 173 K
V = 2420.20 (9) Å3Block, colourless
Z = 80.26 × 0.16 × 0.15 mm
Nonius KappaCCD diffractometer3003 independent reflections
Radiation source: fine-focus sealed tube2568 reflections with I > 2σ(I)
graphiteRint = 0.007
1.2° φ scans and ω scansθmax = 28.3°, θmin = 3.0°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −12→12
Tmin = 0.928, Tmax = 0.958k = −18→18
5629 measured reflectionsl = −24→25
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.037H-atom parameters constrained
wR(F2) = 0.106w = 1/[σ2(Fo2) + (0.058P)2 + 0.664P] where P = (Fo2 + 2Fc2)/3
S = 1.05(Δ/σ)max = 0.001
3003 reflectionsΔρmax = 0.26 e Å3
137 parametersΔρmin = −0.33 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0078 (14)
Experimental. X-ray single-crystal intensity data were collected on a Nonius Kappa-CCD diffractometer using graphite monochromated MoKa radiation (l = 0.71073?Å). Temperature was controlled by an Oxford Cryostream cooling system (Oxford Cryostat). The strategy for the data collections was evaluated using the Bruker Nonius "Collect" program (Nonius, 2000). Data were scaled and reduced using DENZO-SMN software (Otwinowski & Minor, 1997). Absorption corrections were performed using SADABS (Sheldrick, 2008). The structure was solved by direct methods and refined employing full-matrix least-squares with the program SHELXL97 (Sheldrick, 2008) refining on F2. All non-hydrogen atoms were refined anisotropically. Half sphere of data collected using COLLECT strategy (Nonius, 2000). Crystal to detector distance = 30 mm; combination of φ and ω scans of 1.0°, 60 s per °, 2 iterations.1H NMR (CDCl3, 600 MHz): δH 1.64 (m, 6H), 1.96 (m, 6H), 2.04 (s, 3H), 3.87 (s, 2H), 6.19 (s, NH).13C NMR (CDCl3, 100 MHz); δC 29.3 (CH), 36.1 (CH2), 41.1 (CH2), 42.8 (CH2), 52.3 (C), 164.5 (C=O).
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
Cl10.14558 (4)0.52848 (3)0.15642 (2)0.04867 (14)
O10.10158 (8)0.66702 (7)0.27321 (5)0.0342 (2)
N10.33518 (9)0.70366 (7)0.29263 (5)0.0280 (2)
H10.42280.68890.27970.034*
C10.31869 (11)0.77662 (8)0.34943 (6)0.0246 (2)
C20.23383 (13)0.86513 (9)0.32293 (6)0.0316 (3)
H2A0.28090.89300.28040.038*
H2B0.13610.84480.30940.038*
C30.46993 (11)0.80966 (9)0.36968 (6)0.0304 (3)
H3A0.52620.75310.38630.037*
H3B0.51820.83740.32740.037*
C40.24600 (12)0.73351 (8)0.41519 (6)0.0278 (2)
H4A0.30120.67690.43250.033*
H4B0.14880.71100.40260.033*
C50.22636 (14)0.94200 (9)0.38192 (7)0.0360 (3)
H50.17100.99950.36450.043*
C60.37733 (15)0.97414 (9)0.40223 (8)0.0398 (3)
H6A0.42551.00290.36030.048*
H6B0.37261.02420.44000.048*
C70.46230 (12)0.88638 (9)0.42878 (7)0.0333 (3)
H70.56110.90740.44180.040*
C80.38820 (13)0.84361 (10)0.49427 (6)0.0343 (3)
H8A0.38330.89310.53240.041*
H8B0.44340.78740.51230.041*
C90.23705 (13)0.81098 (9)0.47388 (6)0.0316 (3)
H90.18860.78270.51660.038*
C100.15142 (13)0.89847 (10)0.44707 (7)0.0369 (3)
H10A0.14420.94800.48510.044*
H10B0.05360.87770.43410.044*
C110.22906 (11)0.65799 (8)0.25909 (6)0.0275 (2)
C120.28360 (14)0.59104 (11)0.20014 (7)0.0417 (3)
H12A0.35060.54320.22100.050*
H12B0.33700.63020.16490.050*
U11U22U33U12U13U23
Cl10.0435 (2)0.0562 (2)0.0463 (2)−0.00949 (15)−0.01151 (14)−0.01454 (15)
O10.0177 (4)0.0510 (5)0.0338 (4)−0.0016 (3)−0.0025 (3)−0.0013 (4)
N10.0165 (4)0.0365 (5)0.0311 (5)−0.0006 (3)0.0008 (3)−0.0052 (4)
C10.0186 (4)0.0289 (5)0.0263 (5)−0.0003 (4)−0.0003 (4)−0.0008 (4)
C20.0311 (6)0.0326 (6)0.0313 (6)0.0019 (5)−0.0032 (5)0.0047 (5)
C30.0196 (5)0.0377 (6)0.0340 (6)−0.0036 (4)−0.0005 (4)−0.0040 (5)
C40.0259 (5)0.0288 (5)0.0287 (5)−0.0026 (4)0.0014 (4)0.0022 (4)
C50.0370 (6)0.0284 (5)0.0425 (7)0.0061 (5)−0.0044 (5)0.0009 (5)
C60.0448 (7)0.0296 (6)0.0450 (8)−0.0077 (5)0.0000 (6)−0.0006 (5)
C70.0251 (5)0.0375 (6)0.0371 (6)−0.0067 (5)−0.0017 (4)−0.0062 (5)
C80.0338 (6)0.0390 (6)0.0302 (6)0.0002 (5)−0.0050 (5)−0.0048 (5)
C90.0297 (5)0.0376 (6)0.0274 (5)−0.0026 (5)0.0039 (4)−0.0006 (5)
C100.0291 (6)0.0408 (7)0.0407 (7)0.0054 (5)0.0025 (5)−0.0089 (5)
C110.0211 (5)0.0350 (5)0.0264 (5)−0.0015 (4)−0.0021 (4)0.0013 (4)
C120.0292 (6)0.0578 (8)0.0380 (6)−0.0083 (6)0.0008 (5)−0.0170 (6)
Cl1—C121.7567 (13)C5—C101.5329 (19)
O1—C111.2293 (13)C5—H51.0000
N1—C111.3340 (14)C6—C71.5293 (18)
N1—C11.4729 (14)C6—H6A0.9900
N1—H10.8800C6—H6B0.9900
C1—C41.5304 (15)C7—C81.5303 (17)
C1—C31.5354 (14)C7—H71.0000
C1—C21.5366 (15)C8—C91.5336 (16)
C2—C51.5334 (17)C8—H8A0.9900
C2—H2A0.9900C8—H8B0.9900
C2—H2B0.9900C9—C101.5312 (18)
C3—C71.5335 (16)C9—H91.0000
C3—H3A0.9900C10—H10A0.9900
C3—H3B0.9900C10—H10B0.9900
C4—C91.5357 (16)C11—C121.5283 (17)
C4—H4A0.9900C12—H12A0.9900
C4—H4B0.9900C12—H12B0.9900
C5—C61.5298 (18)
C11—N1—C1125.80 (9)C7—C6—H6B109.8
C11—N1—H1117.1C5—C6—H6B109.8
C1—N1—H1117.1H6A—C6—H6B108.2
N1—C1—C4111.59 (9)C6—C7—C8109.25 (10)
N1—C1—C3106.53 (9)C6—C7—C3109.32 (10)
C4—C1—C3108.95 (9)C8—C7—C3109.82 (10)
N1—C1—C2111.04 (9)C6—C7—H7109.5
C4—C1—C2109.78 (9)C8—C7—H7109.5
C3—C1—C2108.85 (9)C3—C7—H7109.5
C5—C2—C1109.59 (9)C7—C8—C9109.28 (10)
C5—C2—H2A109.8C7—C8—H8A109.8
C1—C2—H2A109.8C9—C8—H8A109.8
C5—C2—H2B109.8C7—C8—H8B109.8
C1—C2—H2B109.8C9—C8—H8B109.8
H2A—C2—H2B108.2H8A—C8—H8B108.3
C7—C3—C1109.89 (9)C10—C9—C8109.62 (10)
C7—C3—H3A109.7C10—C9—C4109.71 (10)
C1—C3—H3A109.7C8—C9—C4109.39 (9)
C7—C3—H3B109.7C10—C9—H9109.4
C1—C3—H3B109.7C8—C9—H9109.4
H3A—C3—H3B108.2C4—C9—H9109.4
C1—C4—C9109.61 (9)C9—C10—C5109.26 (10)
C1—C4—H4A109.7C9—C10—H10A109.8
C9—C4—H4A109.7C5—C10—H10A109.8
C1—C4—H4B109.7C9—C10—H10B109.8
C9—C4—H4B109.7C5—C10—H10B109.8
H4A—C4—H4B108.2H10A—C10—H10B108.3
C6—C5—C10109.68 (11)O1—C11—N1125.04 (11)
C6—C5—C2109.72 (10)O1—C11—C12122.81 (10)
C10—C5—C2109.21 (10)N1—C11—C12112.15 (9)
C6—C5—H5109.4C11—C12—Cl1112.84 (9)
C10—C5—H5109.4C11—C12—H12A109.0
C2—C5—H5109.4Cl1—C12—H12A109.0
C7—C6—C5109.53 (10)C11—C12—H12B109.0
C7—C6—H6A109.8Cl1—C12—H12B109.0
C5—C6—H6A109.8H12A—C12—H12B107.8
C11—N1—C1—C462.57 (14)C5—C6—C7—C359.83 (13)
C11—N1—C1—C3−178.63 (11)C1—C3—C7—C6−60.28 (13)
C11—N1—C1—C2−60.26 (14)C1—C3—C7—C859.57 (13)
N1—C1—C2—C5−176.69 (9)C6—C7—C8—C960.43 (13)
C4—C1—C2—C559.45 (12)C3—C7—C8—C9−59.46 (13)
C3—C1—C2—C5−59.73 (12)C7—C8—C9—C10−60.35 (13)
N1—C1—C3—C7179.85 (9)C7—C8—C9—C459.99 (13)
C4—C1—C3—C7−59.64 (12)C1—C4—C9—C1059.49 (12)
C2—C1—C3—C760.05 (12)C1—C4—C9—C8−60.79 (12)
N1—C1—C4—C9177.60 (9)C8—C9—C10—C559.74 (13)
C3—C1—C4—C960.26 (11)C4—C9—C10—C5−60.40 (13)
C2—C1—C4—C9−58.85 (12)C6—C5—C10—C9−59.57 (13)
C1—C2—C5—C660.02 (13)C2—C5—C10—C960.70 (13)
C1—C2—C5—C10−60.23 (13)C1—N1—C11—O1−3.61 (19)
C10—C5—C6—C760.04 (14)C1—N1—C11—C12176.78 (10)
C2—C5—C6—C7−59.92 (14)O1—C11—C12—Cl1−0.73 (17)
C5—C6—C7—C8−60.38 (13)N1—C11—C12—Cl1178.88 (9)
D—H···AD—HH···AD···AD—H···A
N1—H1···O1i0.881.972.8301 (12)165
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O1i0.881.972.8301 (12)165

Symmetry code: (i) .

  5 in total

1.  Identification of new diamine scaffolds with activity against Mycobacterium tuberculosis.

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2.  A short history of SHELX.

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Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

3.  Synthesis and evaluation of SQ109 analogues as potential anti-tuberculosis candidates.

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Journal:  Eur J Med Chem       Date:  2010-01-28       Impact factor: 6.514

4.  Combinatorial lead optimization of [1,2]-diamines based on ethambutol as potential antituberculosis preclinical candidates.

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