Literature DB >> 21581918

N-Cyclo-hexyl-3-(4-hydr-oxy-6-oxo-1,6-dihydro-pyrimidin-5-yl)-3-p-tolyl-propanamide.

Xing-Han Wang1, Wen-Juan Hao, Shu-Jiang Tu.   

Abstract

In the mol-ecule of the title compound, C(20)H(25)N(3)O(3), the aromatic rings are oriented at a dihedral angle of 88.36 (3)°. The cyclo-hexane ring adopts a chair conformation. In the crystal structure, inter-molecular N-H⋯O and O-H⋯N hydrogen bonds link the mol-ecules. C-H⋯π inter-actions are also present.

Entities:  

Year:  2009        PMID: 21581918      PMCID: PMC2968226          DOI: 10.1107/S1600536809001251

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


Related literature

For general background, see: Johar et al. (2005 ▶); Janeba et al. (2005 ▶); Soloducho et al. (2003 ▶); Mathews & Asokan (2007 ▶); Lagoja (2005 ▶); Michael (2005 ▶); Erian (1993 ▶). For bond-length data, see: Allen et al. (1987 ▶). For ring-puckering parameters, see: Cremer & Pople (1975 ▶).

Experimental

Crystal data

C20H25N3O3 M = 355.43 Monoclinic, a = 7.1563 (12) Å b = 19.637 (2) Å c = 13.2746 (18) Å β = 101.740 (2)° V = 1826.5 (4) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 298 (2) K 0.23 × 0.16 × 0.14 mm

Data collection

Bruker SMART CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 1998 ▶) T min = 0.980, T max = 0.988 9491 measured reflections 3216 independent reflections 1916 reflections with I > 2σ(I) R int = 0.073

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.104 S = 1.02 3216 reflections 235 parameters H-atom parameters constrained Δρmax = 0.16 e Å−3 Δρmin = −0.19 e Å−3 Data collection: SMART (Bruker, 1998 ▶); cell refinement: SAINT (Bruker, 1998 ▶); data reduction: SAINT (Bruker, 1998 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Bruker, 1998 ▶); software used to prepare material for publication: SHELXTL (Bruker, 1998 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809001251/hk2610sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809001251/hk2610Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H25N3O3F(000) = 760
Mr = 355.43Dx = 1.293 Mg m3
Monoclinic, P21/nMelting point = 534–536 K
Hall symbol: -P 2ynMo Kα radiation, λ = 0.71073 Å
a = 7.1563 (12) ÅCell parameters from 1921 reflections
b = 19.637 (2) Åθ = 2.6–27.7°
c = 13.2746 (18) ŵ = 0.09 mm1
β = 101.740 (2)°T = 298 K
V = 1826.5 (4) Å3Block, colorless
Z = 40.23 × 0.16 × 0.14 mm
Bruker SMART CCD area-detector diffractometer3216 independent reflections
Radiation source: fine-focus sealed tube1916 reflections with I > 2σ(I)
graphiteRint = 0.073
φ and ω scansθmax = 25.0°, θmin = 1.9°
Absorption correction: multi-scan (SADABS; Bruker, 1998)h = −8→8
Tmin = 0.980, Tmax = 0.988k = −23→21
9491 measured reflectionsl = −15→15
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.048Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.104H-atom parameters constrained
S = 1.02w = 1/[σ2(Fo2) + (0.0354P)2] where P = (Fo2 + 2Fc2)/3
3216 reflections(Δ/σ)max = 0.001
235 parametersΔρmax = 0.16 e Å3
0 restraintsΔρmin = −0.19 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
O10.8327 (2)1.04303 (8)0.89288 (11)0.0456 (5)
H1A0.85981.02970.95260.068*
O21.1335 (2)1.04358 (9)0.60752 (11)0.0511 (5)
O30.5892 (2)0.93937 (8)0.69802 (11)0.0447 (4)
N11.2782 (3)1.00038 (10)0.76292 (14)0.0387 (5)
H11.37860.99090.73940.046*
N21.1340 (3)0.99789 (9)0.90587 (13)0.0367 (5)
N30.7956 (3)0.91122 (9)0.59665 (13)0.0378 (5)
H30.85140.92510.54880.045*
C11.2753 (3)0.98462 (12)0.86043 (17)0.0396 (6)
H1B1.38150.96260.89870.048*
C20.9778 (3)1.02944 (11)0.84599 (16)0.0316 (5)
C30.9650 (3)1.04690 (10)0.74467 (15)0.0290 (5)
C41.1234 (3)1.03189 (11)0.69730 (17)0.0346 (6)
C50.6857 (3)0.95565 (11)0.63376 (16)0.0329 (6)
C60.6872 (3)1.02749 (11)0.59477 (16)0.0350 (6)
H6A0.55721.04220.56790.042*
H6B0.75631.02910.53910.042*
C70.7820 (3)1.07626 (11)0.68124 (15)0.0317 (6)
H70.69311.07950.72830.038*
C80.8005 (3)1.14835 (11)0.64204 (16)0.0302 (5)
C90.6815 (3)1.17248 (12)0.55327 (17)0.0366 (6)
H90.60221.14210.51080.044*
C100.6781 (3)1.24068 (12)0.52658 (18)0.0400 (6)
H100.59521.25530.46720.048*
C110.7955 (4)1.28759 (12)0.58638 (19)0.0393 (6)
C120.9218 (4)1.26311 (12)0.67173 (19)0.0412 (6)
H121.00681.29310.71150.049*
C130.9251 (3)1.19530 (12)0.69940 (17)0.0367 (6)
H131.01181.18060.75730.044*
C140.7807 (4)1.36269 (12)0.5595 (2)0.0587 (8)
H14A0.86431.37310.51350.088*
H14B0.81681.38920.62120.088*
H14C0.65171.37340.52690.088*
C150.8280 (3)0.84081 (11)0.63122 (17)0.0367 (6)
H150.72000.82660.66140.044*
C161.0092 (4)0.83383 (13)0.71338 (18)0.0488 (7)
H16A0.99990.86270.77140.059*
H16B1.11740.84920.68570.059*
C171.0429 (4)0.76056 (13)0.75025 (19)0.0532 (7)
H17A1.16490.75760.79790.064*
H17B0.94420.74730.78680.064*
C181.0418 (4)0.71171 (14)0.6614 (2)0.0593 (8)
H18A1.15380.71980.63240.071*
H18B1.04830.66530.68690.071*
C190.8642 (4)0.72005 (12)0.5780 (2)0.0556 (8)
H19A0.75360.70570.60430.067*
H19B0.87380.69100.52020.067*
C200.8367 (4)0.79365 (12)0.54125 (18)0.0435 (6)
H20A0.94180.80700.50950.052*
H20B0.71950.79750.49000.052*
U11U22U33U12U13U23
O10.0413 (10)0.0669 (13)0.0301 (9)0.0186 (9)0.0109 (8)0.0084 (8)
O20.0557 (12)0.0680 (13)0.0339 (10)0.0139 (10)0.0193 (9)0.0113 (8)
O30.0467 (11)0.0426 (10)0.0503 (10)0.0067 (8)0.0227 (9)0.0080 (8)
N10.0312 (12)0.0497 (13)0.0373 (11)0.0088 (10)0.0120 (10)0.0044 (10)
N20.0357 (12)0.0444 (13)0.0295 (11)0.0122 (10)0.0057 (9)0.0041 (9)
N30.0432 (13)0.0354 (12)0.0390 (11)0.0032 (10)0.0185 (10)0.0063 (9)
C10.0356 (15)0.0456 (15)0.0353 (14)0.0085 (12)0.0020 (12)0.0041 (11)
C20.0292 (13)0.0365 (14)0.0286 (13)0.0043 (11)0.0047 (11)−0.0004 (10)
C30.0301 (13)0.0301 (13)0.0257 (12)0.0031 (11)0.0030 (10)0.0007 (10)
C40.0371 (15)0.0360 (14)0.0304 (13)0.0042 (12)0.0061 (12)0.0026 (11)
C50.0296 (14)0.0373 (15)0.0302 (13)−0.0008 (11)0.0024 (11)0.0011 (11)
C60.0363 (15)0.0344 (14)0.0319 (13)0.0028 (11)0.0016 (11)0.0038 (10)
C70.0340 (14)0.0347 (14)0.0263 (12)0.0042 (11)0.0059 (11)0.0018 (10)
C80.0277 (13)0.0324 (14)0.0305 (13)0.0052 (11)0.0063 (11)0.0021 (11)
C90.0315 (14)0.0359 (15)0.0403 (14)−0.0024 (11)0.0020 (12)0.0036 (11)
C100.0372 (15)0.0397 (15)0.0420 (15)0.0012 (13)0.0053 (12)0.0081 (12)
C110.0348 (15)0.0356 (15)0.0493 (16)0.0008 (12)0.0130 (13)0.0031 (12)
C120.0328 (15)0.0378 (15)0.0537 (17)−0.0081 (12)0.0104 (13)−0.0084 (12)
C130.0292 (14)0.0418 (15)0.0376 (14)0.0014 (12)0.0034 (12)−0.0012 (11)
C140.066 (2)0.0381 (17)0.0760 (19)0.0006 (14)0.0241 (16)0.0061 (14)
C150.0355 (15)0.0356 (15)0.0413 (14)0.0049 (11)0.0132 (12)0.0074 (11)
C160.0460 (17)0.0539 (17)0.0462 (16)0.0012 (14)0.0090 (14)0.0077 (13)
C170.0423 (17)0.0642 (19)0.0551 (17)0.0101 (14)0.0148 (14)0.0224 (15)
C180.0567 (19)0.0523 (19)0.075 (2)0.0196 (15)0.0281 (17)0.0207 (15)
C190.059 (2)0.0414 (17)0.071 (2)0.0062 (14)0.0233 (17)−0.0026 (14)
C200.0406 (16)0.0427 (16)0.0477 (15)0.0063 (13)0.0099 (13)−0.0021 (12)
N1—C11.335 (3)C10—H100.9300
N1—C41.406 (3)C11—C121.384 (3)
N1—H10.8600C11—C141.516 (3)
N2—C11.305 (3)C12—C131.380 (3)
N2—C21.380 (3)C12—H120.9300
N3—C51.334 (3)C13—H130.9300
N3—C151.460 (3)C14—H14A0.9600
N3—H30.8600C14—H14B0.9600
O1—C21.341 (2)C14—H14C0.9600
O1—H1A0.8200C15—C161.522 (3)
O2—C41.230 (2)C15—C201.523 (3)
O3—C51.244 (2)C15—H150.9800
C1—H1B0.9300C16—C171.523 (3)
C2—C31.373 (3)C16—H16A0.9700
C3—C41.435 (3)C16—H16B0.9700
C3—C71.519 (3)C17—C181.519 (4)
C5—C61.504 (3)C17—H17A0.9700
C6—C71.542 (3)C17—H17B0.9700
C6—H6A0.9700C18—C191.515 (4)
C6—H6B0.9700C18—H18A0.9700
C7—C81.523 (3)C18—H18B0.9700
C7—H70.9800C19—C201.525 (3)
C8—C91.390 (3)C19—H19A0.9700
C8—C131.396 (3)C19—H19B0.9700
C9—C101.384 (3)C20—H20A0.9700
C9—H90.9300C20—H20B0.9700
C10—C111.383 (3)
C1—N1—C4122.5 (2)C13—C12—H12119.1
C1—N1—H1118.8C11—C12—H12119.1
C4—N1—H1118.8C12—C13—C8121.2 (2)
C1—N2—C2115.89 (18)C12—C13—H13119.4
C5—N3—C15124.82 (18)C8—C13—H13119.4
C5—N3—H3117.6C11—C14—H14A109.5
C15—N3—H3117.6C11—C14—H14B109.5
C2—O1—H1A109.5H14A—C14—H14B109.5
N2—C1—N1124.6 (2)C11—C14—H14C109.5
N2—C1—H1B117.7H14A—C14—H14C109.5
N1—C1—H1B117.7H14B—C14—H14C109.5
O1—C2—C3120.1 (2)N3—C15—C16111.59 (19)
O1—C2—N2115.78 (18)N3—C15—C20111.02 (18)
C3—C2—N2124.1 (2)C16—C15—C20110.01 (19)
C2—C3—C4118.5 (2)N3—C15—H15108.0
C2—C3—C7121.06 (19)C16—C15—H15108.0
C4—C3—C7120.26 (18)C20—C15—H15108.0
O2—C4—N1119.2 (2)C15—C16—C17111.8 (2)
O2—C4—C3126.4 (2)C15—C16—H16A109.3
N1—C4—C3114.34 (18)C17—C16—H16A109.3
O3—C5—N3122.4 (2)C15—C16—H16B109.3
O3—C5—C6121.4 (2)C17—C16—H16B109.3
N3—C5—C6116.14 (19)H16A—C16—H16B107.9
C5—C6—C7111.05 (17)C18—C17—C16111.8 (2)
C5—C6—H6A109.4C18—C17—H17A109.3
C7—C6—H6A109.4C16—C17—H17A109.3
C5—C6—H6B109.4C18—C17—H17B109.3
C7—C6—H6B109.4C16—C17—H17B109.3
H6A—C6—H6B108.0H17A—C17—H17B107.9
C3—C7—C8114.65 (18)C19—C18—C17111.7 (2)
C3—C7—C6112.09 (17)C19—C18—H18A109.3
C8—C7—C6112.24 (17)C17—C18—H18A109.3
C3—C7—H7105.7C19—C18—H18B109.3
C8—C7—H7105.7C17—C18—H18B109.3
C6—C7—H7105.7H18A—C18—H18B107.9
C9—C8—C13116.8 (2)C18—C19—C20111.7 (2)
C9—C8—C7121.7 (2)C18—C19—H19A109.3
C13—C8—C7121.2 (2)C20—C19—H19A109.3
C10—C9—C8121.5 (2)C18—C19—H19B109.3
C10—C9—H9119.2C20—C19—H19B109.3
C8—C9—H9119.2H19A—C19—H19B107.9
C11—C10—C9121.4 (2)C15—C20—C19110.4 (2)
C11—C10—H10119.3C15—C20—H20A109.6
C9—C10—H10119.3C19—C20—H20A109.6
C10—C11—C12117.3 (2)C15—C20—H20B109.6
C10—C11—C14120.5 (2)C19—C20—H20B109.6
C12—C11—C14122.2 (2)H20A—C20—H20B108.1
C13—C12—C11121.7 (2)
C2—N2—C1—N11.1 (3)C3—C7—C8—C9153.35 (19)
C4—N1—C1—N2−1.8 (4)C6—C7—C8—C924.0 (3)
C1—N2—C2—O1180.0 (2)C3—C7—C8—C13−33.2 (3)
C1—N2—C2—C3−0.1 (3)C6—C7—C8—C13−162.62 (19)
O1—C2—C3—C4179.7 (2)C13—C8—C9—C10−4.0 (3)
N2—C2—C3—C4−0.3 (3)C7—C8—C9—C10169.7 (2)
O1—C2—C3—C7−5.2 (3)C8—C9—C10—C111.0 (3)
N2—C2—C3—C7174.9 (2)C9—C10—C11—C122.5 (3)
C1—N1—C4—O2−178.3 (2)C9—C10—C11—C14−176.1 (2)
C1—N1—C4—C31.3 (3)C10—C11—C12—C13−3.1 (3)
C2—C3—C4—O2179.2 (2)C14—C11—C12—C13175.5 (2)
C7—C3—C4—O24.0 (4)C11—C12—C13—C80.1 (3)
C2—C3—C4—N1−0.3 (3)C9—C8—C13—C123.4 (3)
C7—C3—C4—N1−175.56 (18)C7—C8—C13—C12−170.3 (2)
C15—N3—C5—O3−4.8 (3)C5—N3—C15—C16−94.9 (3)
C15—N3—C5—C6174.2 (2)C5—N3—C15—C20142.0 (2)
O3—C5—C6—C766.6 (3)N3—C15—C16—C17179.60 (18)
N3—C5—C6—C7−112.4 (2)C20—C15—C16—C17−56.7 (3)
C2—C3—C7—C8117.4 (2)C15—C16—C17—C1854.0 (3)
C4—C3—C7—C8−67.5 (3)C16—C17—C18—C19−52.2 (3)
C2—C3—C7—C6−113.1 (2)C17—C18—C19—C2054.0 (3)
C4—C3—C7—C662.0 (3)N3—C15—C20—C19−178.2 (2)
C5—C6—C7—C344.5 (2)C16—C15—C20—C1957.8 (3)
C5—C6—C7—C8175.24 (18)C18—C19—C20—C15−57.0 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1···O3i0.861.982.813 (3)162
O1—H1A···N2ii0.821.952.753 (3)168
N3—H3···O2iii0.862.192.992 (4)155
C17—H17B···Cg2iv0.972.473.440 (3)177
C20—H20A···Cg2v0.972.743.629 (3)152
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O3i0.861.982.813 (3)162
O1—H1A⋯N2ii0.821.952.753 (3)168
N3—H3⋯O2iii0.862.192.992 (4)155
C17—H17BCg2iv0.972.473.440 (3)177
C20—H20ACg2v0.972.743.629 (3)152

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) . Cg2 is centroid of the C8–C13 ring.

  5 in total

Review 1.  Quinoline, quinazoline and acridone alkaloids.

Authors:  Joseph P Michael
Journal:  Nat Prod Rep       Date:  2005-08-24       Impact factor: 13.423

2.  A short history of SHELX.

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

3.  Synthesis and biological evaluation of acyclic 3-[(2-hydroxyethoxy)methyl] analogues of antiviral furo- and pyrrolo[2,3-d]pyrimidine nucleosides.

Authors:  Zlatko Janeba; Jan Balzarini; Graciela Andrei; Robert Snoeck; Erik De Clercq; Morris J Robins
Journal:  J Med Chem       Date:  2005-07-14       Impact factor: 7.446

Review 4.  Pyrimidine as constituent of natural biologically active compounds.

Authors:  Irene M Lagoja
Journal:  Chem Biodivers       Date:  2005-01       Impact factor: 2.408

5.  Synthesis and in vitro anti-mycobacterial activity of 5-substituted pyrimidine nucleosides.

Authors:  Monika Johar; Tracey Manning; Dennis Y Kunimoto; Rakesh Kumar
Journal:  Bioorg Med Chem       Date:  2005-09-01       Impact factor: 3.641

  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.