Literature DB >> 21202553

N-(2-Hydroxy-ethyl)-N-(tricyclo-[3.3.1.1]dec-2-yl)benzamide.

Grant A Boyle, Thavendran Govender, Hendrik G Kruger, Oluseye K Onajole.   

Abstract

The title adamantane derivative, C(19)H(25)NO(2), was synthesized as part of a study into potential anti-tuberculosis agents. The adamantane skeleton displays shorter than normal C-C bond lengths ranging between 1.5230 (15) and 1.5329 (16) Å. The structure displays O-H⋯O hydrogen bonding and an inter-digitated layered packing structure with distinct hydro-philic and hydro-phobic regions.

Entities:  

Year:  2008        PMID: 21202553      PMCID: PMC2961498          DOI: 10.1107/S1600536808013469

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


Related literature

For related literature, see: Bogatcheva et al. (2006 ▶); Jacobson et al. (1987 ▶); Lee et al., (2003 ▶)

Experimental

Crystal data

C19H25NO2 M = 299.40 Monoclinic, a = 11.4248 (3) Å b = 16.0902 (4) Å c = 8.7211 (2) Å β = 107.9030 (10)° V = 1525.55 (7) Å3 Z = 4 Mo Kα radiation μ = 0.08 mm−1 T = 173 (2) K 0.44 × 0.33 × 0.16 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: none 19272 measured reflections 3684 independent reflections 2861 reflections with I > 2σ(I) R int = 0.050

Refinement

R[F 2 > 2σ(F 2)] = 0.041 wR(F 2) = 0.109 S = 1.12 3684 reflections 200 parameters H-atom parameters constrained Δρmax = 0.29 e Å−3 Δρmin = −0.22 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT-Plus (Bruker, 1999 ▶); data reduction: SAINT-Plus; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: Mercury (Macrae et al., 2006 ▶) and WinGX (Farrugia, 1999 ▶); software used to prepare material for publication: SHELXTL and PLATON (Spek, 2003 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536808013469/fl2199sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808013469/fl2199Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H25NO2F000 = 648
Mr = 299.40Dx = 1.304 Mg m3
Monoclinic, P21/cMo Kα radiation λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 5317 reflections
a = 11.4248 (3) Åθ = 2.3–28.2º
b = 16.0902 (4) ŵ = 0.08 mm1
c = 8.7211 (2) ÅT = 173 (2) K
β = 107.9030 (10)ºBlock, colourless
V = 1525.55 (7) Å30.44 × 0.33 × 0.16 mm
Z = 4
Bruker SMART CCD area-detector diffractometer2861 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.050
Monochromator: graphiteθmax = 28.0º
T = 173(2) Kθmin = 1.9º
φ and ω scansh = −15→15
Absorption correction: nonek = −21→21
19272 measured reflectionsl = −11→11
3684 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)] = 0.041H-atom parameters constrained
wR(F2) = 0.109  w = 1/[σ2(Fo2) + (0.0562P)2] where P = (Fo2 + 2Fc2)/3
S = 1.12(Δ/σ)max = 0.001
3684 reflectionsΔρmax = 0.29 e Å3
200 parametersΔρmin = −0.22 e Å3
Primary atom site location: structure-invariant direct methodsExtinction correction: none
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
C10.26872 (10)0.12522 (7)0.22178 (13)0.0191 (2)
H10.27970.13960.33690.023*
C20.32356 (10)0.03827 (6)0.21268 (13)0.0170 (2)
H20.41450.04140.26560.020*
C30.30029 (10)0.01726 (7)0.03325 (13)0.0179 (2)
H30.3322−0.03980.02390.021*
C40.16309 (10)0.02106 (7)−0.06201 (14)0.0215 (3)
H4A0.15120.0068−0.17620.026*
H4B0.1172−0.0198−0.01770.026*
C50.11394 (11)0.10846 (7)−0.05095 (14)0.0226 (3)
H50.02440.1109−0.11280.027*
C60.18444 (11)0.17132 (7)−0.12046 (14)0.0250 (3)
H6A0.15220.2279−0.11430.030*
H6B0.17280.1583−0.23520.030*
C70.32164 (11)0.16808 (7)−0.02533 (14)0.0220 (3)
H70.36780.2092−0.07070.026*
C80.33836 (11)0.18828 (7)0.15074 (14)0.0212 (3)
H8A0.30710.24490.15920.025*
H8B0.42690.18690.21260.025*
C90.13223 (11)0.12772 (7)0.12635 (14)0.0225 (3)
H9A0.09860.18350.13620.027*
H9B0.08720.08640.17090.027*
C100.36964 (10)0.08045 (7)−0.03724 (13)0.0210 (3)
H10A0.45860.07780.02230.025*
H10B0.35860.0668−0.15150.025*
C110.27216 (11)−0.11302 (7)0.24168 (14)0.0206 (3)
H11A0.2282−0.11530.12460.025*
H11B0.2266−0.14820.29720.025*
C120.40094 (11)−0.14766 (7)0.27306 (14)0.0242 (3)
H12A0.3964−0.20320.22260.029*
H12B0.4490−0.11070.22430.029*
C130.29089 (10)−0.01541 (7)0.45859 (13)0.0206 (3)
C140.22837 (11)−0.07451 (7)0.54113 (13)0.0206 (2)
C150.10237 (11)−0.08725 (8)0.48552 (15)0.0264 (3)
H150.0542−0.06070.38960.032*
C160.04662 (12)−0.13882 (9)0.56983 (16)0.0316 (3)
H16−0.0399−0.14680.53240.038*
C170.11626 (12)−0.17845 (8)0.70758 (15)0.0299 (3)
H170.0780−0.21490.76350.036*
C180.24153 (12)−0.16534 (7)0.76451 (15)0.0270 (3)
H180.2895−0.19230.86010.032*
C190.29721 (11)−0.11306 (7)0.68239 (14)0.0231 (3)
H190.3833−0.10340.72290.028*
N10.27326 (8)−0.02630 (5)0.29804 (11)0.0183 (2)
O10.46035 (8)−0.15413 (6)0.44118 (10)0.0311 (2)
H1A0.5219−0.12260.46760.047*
O20.34988 (8)0.04282 (5)0.53714 (10)0.0301 (2)
U11U22U33U12U13U23
C10.0225 (6)0.0194 (5)0.0167 (5)−0.0003 (4)0.0081 (5)−0.0023 (4)
C20.0180 (5)0.0183 (5)0.0157 (5)−0.0021 (4)0.0064 (4)0.0004 (4)
C30.0201 (6)0.0183 (5)0.0166 (5)−0.0001 (4)0.0075 (4)−0.0018 (4)
C40.0212 (6)0.0250 (6)0.0177 (6)−0.0035 (5)0.0052 (5)−0.0039 (4)
C50.0161 (6)0.0281 (6)0.0217 (6)0.0016 (5)0.0030 (5)−0.0006 (5)
C60.0282 (7)0.0261 (6)0.0199 (6)0.0028 (5)0.0060 (5)0.0034 (5)
C70.0244 (6)0.0218 (6)0.0214 (6)−0.0014 (5)0.0094 (5)0.0032 (5)
C80.0235 (6)0.0186 (5)0.0218 (6)−0.0019 (5)0.0071 (5)−0.0007 (4)
C90.0208 (6)0.0240 (6)0.0248 (6)0.0013 (5)0.0102 (5)−0.0015 (5)
C100.0193 (6)0.0269 (6)0.0183 (6)−0.0003 (5)0.0082 (5)0.0000 (5)
C110.0237 (6)0.0178 (5)0.0220 (6)−0.0031 (4)0.0094 (5)−0.0016 (4)
C120.0251 (6)0.0211 (6)0.0282 (7)0.0004 (5)0.0109 (5)0.0004 (5)
C130.0208 (6)0.0225 (6)0.0182 (6)−0.0011 (5)0.0054 (5)0.0010 (4)
C140.0248 (6)0.0206 (6)0.0183 (5)−0.0017 (5)0.0097 (5)−0.0022 (4)
C150.0242 (6)0.0327 (7)0.0222 (6)−0.0018 (5)0.0070 (5)0.0008 (5)
C160.0248 (7)0.0387 (7)0.0349 (7)−0.0082 (5)0.0142 (6)−0.0039 (6)
C170.0386 (8)0.0254 (6)0.0340 (7)−0.0043 (6)0.0233 (6)0.0009 (5)
C180.0368 (7)0.0234 (6)0.0246 (6)0.0045 (5)0.0150 (6)0.0028 (5)
C190.0226 (6)0.0248 (6)0.0233 (6)0.0002 (5)0.0091 (5)0.0002 (5)
N10.0212 (5)0.0171 (5)0.0178 (5)−0.0024 (4)0.0078 (4)−0.0006 (4)
O10.0250 (5)0.0372 (5)0.0302 (5)0.0001 (4)0.0070 (4)0.0092 (4)
O20.0386 (5)0.0317 (5)0.0189 (4)−0.0140 (4)0.0072 (4)−0.0028 (4)
C1—C91.5258 (15)C9—H9B0.9900
C1—C81.5329 (16)C10—H10A0.9900
C1—C21.5450 (15)C10—H10B0.9900
C1—H11.0000C11—N11.4783 (14)
C2—N11.4922 (14)C11—C121.5174 (16)
C2—C31.5420 (15)C11—H11A0.9900
C2—H21.0000C11—H11B0.9900
C3—C101.5293 (15)C12—O11.4175 (14)
C3—C41.5330 (15)C12—H12A0.9900
C3—H31.0000C12—H12B0.9900
C4—C51.5283 (16)C13—O21.2319 (13)
C4—H4A0.9900C13—N11.3632 (14)
C4—H4B0.9900C13—C141.4996 (16)
C5—C91.5270 (16)C14—C151.3858 (16)
C5—C61.5295 (17)C14—C191.3876 (16)
C5—H51.0000C15—C161.3867 (18)
C6—C71.5325 (16)C15—H150.9500
C6—H6A0.9900C16—C171.3766 (19)
C6—H6B0.9900C16—H160.9500
C7—C81.5230 (15)C17—C181.3793 (18)
C7—C101.5280 (16)C17—H170.9500
C7—H71.0000C18—C191.3804 (16)
C8—H8A0.9900C18—H180.9500
C8—H8B0.9900C19—H190.9500
C9—H9A0.9900O1—H1A0.8400
C9—C1—C8109.43 (9)C1—C9—H9A109.6
C9—C1—C2111.00 (9)C5—C9—H9A109.6
C8—C1—C2108.03 (9)C1—C9—H9B109.6
C9—C1—H1109.5C5—C9—H9B109.6
C8—C1—H1109.5H9A—C9—H9B108.1
C2—C1—H1109.5C7—C10—C3110.19 (9)
N1—C2—C3112.39 (9)C7—C10—H10A109.6
N1—C2—C1112.35 (9)C3—C10—H10A109.6
C3—C2—C1107.73 (9)C7—C10—H10B109.6
N1—C2—H2108.1C3—C10—H10B109.6
C3—C2—H2108.1H10A—C10—H10B108.1
C1—C2—H2108.1N1—C11—C12112.21 (9)
C10—C3—C4108.99 (9)N1—C11—H11A109.2
C10—C3—C2108.25 (9)C12—C11—H11A109.2
C4—C3—C2111.70 (9)N1—C11—H11B109.2
C10—C3—H3109.3C12—C11—H11B109.2
C4—C3—H3109.3H11A—C11—H11B107.9
C2—C3—H3109.3O1—C12—C11110.06 (10)
C5—C4—C3109.69 (9)O1—C12—H12A109.6
C5—C4—H4A109.7C11—C12—H12A109.6
C3—C4—H4A109.7O1—C12—H12B109.6
C5—C4—H4B109.7C11—C12—H12B109.6
C3—C4—H4B109.7H12A—C12—H12B108.2
H4A—C4—H4B108.2O2—C13—N1123.49 (10)
C9—C5—C4108.18 (9)O2—C13—C14118.37 (10)
C9—C5—C6110.02 (10)N1—C13—C14118.02 (10)
C4—C5—C6109.57 (10)C15—C14—C19119.26 (11)
C9—C5—H5109.7C15—C14—C13121.52 (10)
C4—C5—H5109.7C19—C14—C13119.08 (10)
C6—C5—H5109.7C14—C15—C16120.01 (12)
C5—C6—C7109.79 (9)C14—C15—H15120.0
C5—C6—H6A109.7C16—C15—H15120.0
C7—C6—H6A109.7C17—C16—C15120.22 (12)
C5—C6—H6B109.7C17—C16—H16119.9
C7—C6—H6B109.7C15—C16—H16119.9
H6A—C6—H6B108.2C16—C17—C18120.05 (12)
C8—C7—C10109.21 (9)C16—C17—H17120.0
C8—C7—C6109.21 (10)C18—C17—H17120.0
C10—C7—C6108.86 (9)C17—C18—C19119.94 (12)
C8—C7—H7109.8C17—C18—H18120.0
C10—C7—H7109.8C19—C18—H18120.0
C6—C7—H7109.8C18—C19—C14120.48 (11)
C7—C8—C1110.27 (9)C18—C19—H19119.8
C7—C8—H8A109.6C14—C19—H19119.8
C1—C8—H8A109.6C13—N1—C11116.51 (9)
C7—C8—H8B109.6C13—N1—C2117.71 (9)
C1—C8—H8B109.6C11—N1—C2117.16 (9)
H8A—C8—H8B108.1C12—O1—H1A109.5
C1—C9—C5110.23 (9)
C9—C1—C2—N1−67.42 (12)C4—C3—C10—C760.22 (11)
C8—C1—C2—N1172.61 (9)C2—C3—C10—C7−61.46 (11)
C9—C1—C2—C356.91 (12)N1—C11—C12—O165.78 (12)
C8—C1—C2—C3−63.06 (11)O2—C13—C14—C15121.39 (13)
N1—C2—C3—C10−172.53 (9)N1—C13—C14—C15−54.82 (15)
C1—C2—C3—C1063.16 (11)O2—C13—C14—C19−54.31 (15)
N1—C2—C3—C467.48 (11)N1—C13—C14—C19129.49 (11)
C1—C2—C3—C4−56.83 (11)C19—C14—C15—C16−0.74 (18)
C10—C3—C4—C5−59.62 (12)C13—C14—C15—C16−176.43 (11)
C2—C3—C4—C559.94 (12)C14—C15—C16—C17−0.94 (19)
C3—C4—C5—C9−60.20 (12)C15—C16—C17—C181.6 (2)
C3—C4—C5—C659.75 (12)C16—C17—C18—C19−0.61 (19)
C9—C5—C6—C758.95 (12)C17—C18—C19—C14−1.08 (18)
C4—C5—C6—C7−59.87 (12)C15—C14—C19—C181.75 (17)
C5—C6—C7—C8−59.44 (12)C13—C14—C19—C18177.55 (11)
C5—C6—C7—C1059.72 (12)O2—C13—N1—C11144.02 (12)
C10—C7—C8—C1−59.05 (12)C14—C13—N1—C11−39.99 (14)
C6—C7—C8—C159.90 (12)O2—C13—N1—C2−2.93 (16)
C9—C1—C8—C7−59.43 (12)C14—C13—N1—C2173.06 (9)
C2—C1—C8—C761.54 (11)C12—C11—N1—C13−80.57 (12)
C8—C1—C9—C558.41 (12)C12—C11—N1—C266.57 (12)
C2—C1—C9—C5−60.73 (12)C3—C2—N1—C13178.49 (9)
C4—C5—C9—C161.06 (12)C1—C2—N1—C13−59.80 (13)
C6—C5—C9—C1−58.61 (12)C3—C2—N1—C1131.75 (13)
C8—C7—C10—C358.96 (12)C1—C2—N1—C11153.46 (9)
C6—C7—C10—C3−60.20 (12)
D—H···AD—HH···AD···AD—H···A
O1—H1A···O2i0.841.962.7735 (12)164
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1A⋯O2i0.841.962.7735 (12)164

Symmetry code: (i) .

  3 in total

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

Authors:  Elena Bogatcheva; Colleen Hanrahan; Boris Nikonenko; Rowena Samala; Ping Chen; Jacqueline Gearhart; Francis Barbosa; Leo Einck; Carol A Nacy; Marina Protopopova
Journal:  J Med Chem       Date:  2006-06-01       Impact factor: 7.446

2.  A short history of SHELX.

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

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

Authors:  Richard E Lee; Marina Protopopova; Emma Crooks; Richard A Slayden; Marianne Terrot; Clifton E Barry
Journal:  J Comb Chem       Date:  2003 Mar-Apr
  3 in total

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