Literature DB >> 22199767

2-[(Pyrimidin-2-yl-amino)-meth-yl]phenol.

Jing Xu, Shan Gao, Seik Weng Ng.   

Abstract

In the title compound, C(11)H(11)N(3)O, the aromatic rings at either ends of the -CH(2)-NH- link are twisted by 72.58 (8)°; the hy-droxy substituent is a hydrogen-bond donor to an N atom of the pyrimidine ring. The other N atom of the pyrimidine ring is a hydrogen-bond acceptor to the amino group of an inversion-related mol-ecule.

Entities:  

Year:  2011        PMID: 22199767      PMCID: PMC3238918          DOI: 10.1107/S1600536811046848

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


Related literature

For the N-salicyl­idene-2-amino­pyrimidine precursor, see: El-Haty et al. (1990 ▶); Issa et al. (2011 ▶); Shalabi & Abdel-Ghani (1990 ▶). For a related structure, see: Xu et al. (2011 ▶).

Experimental

Crystal data

C11H11N3O M = 201.23 Monoclinic, a = 5.8625 (4) Å b = 9.3610 (7) Å c = 18.4058 (13) Å β = 95.208 (2)° V = 1005.92 (12) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 293 K 0.22 × 0.17 × 0.15 mm

Data collection

Rigaku R-AXIS RAPID IP diffractometer Absorption correction: multi-scan (ABSCOR; Higashi, 1995 ▶) T min = 0.981, T max = 0.987 9626 measured reflections 2296 independent reflections 1476 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.040 wR(F 2) = 0.149 S = 1.12 2296 reflections 144 parameters 2 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.14 e Å−3 Δρmin = −0.15 e Å−3 Data collection: RAPID-AUTO (Rigaku, 1998 ▶); cell refinement: RAPID-AUTO; data reduction: CrystalClear (Rigaku/MSC, 2002 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: X-SEED (Barbour, 2001 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811046848/xu5383sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811046848/xu5383Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811046848/xu5383Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C11H11N3OF(000) = 424
Mr = 201.23Dx = 1.329 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 6005 reflections
a = 5.8625 (4) Åθ = 3.1–27.4°
b = 9.3610 (7) ŵ = 0.09 mm1
c = 18.4058 (13) ÅT = 293 K
β = 95.208 (2)°Prism, colorless
V = 1005.92 (12) Å30.22 × 0.17 × 0.15 mm
Z = 4
Rigaku R-AXIS RAPID IP diffractometer2296 independent reflections
Radiation source: fine-focus sealed tube1476 reflections with I > 2σ(I)
graphiteRint = 0.030
ω scanθmax = 27.4°, θmin = 3.1°
Absorption correction: multi-scan (ABSCOR; Higashi, 1995)h = −7→6
Tmin = 0.981, Tmax = 0.987k = −12→12
9626 measured reflectionsl = −23→23
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.040Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.149H atoms treated by a mixture of independent and constrained refinement
S = 1.12w = 1/[σ2(Fo2) + (0.0796P)2 + 0.034P] where P = (Fo2 + 2Fc2)/3
2296 reflections(Δ/σ)max = 0.001
144 parametersΔρmax = 0.14 e Å3
2 restraintsΔρmin = −0.15 e Å3
xyzUiso*/Ueq
O11.0476 (2)0.91985 (13)0.62203 (7)0.0630 (4)
N10.5979 (2)0.67826 (16)0.53868 (8)0.0571 (4)
N20.9251 (2)0.77099 (14)0.49494 (7)0.0534 (4)
N30.7438 (2)0.55875 (14)0.44465 (7)0.0517 (4)
C10.9836 (3)0.82174 (16)0.67131 (9)0.0488 (4)
C21.1341 (3)0.79323 (18)0.73237 (9)0.0554 (4)
H21.27180.84280.73930.066*
C31.0819 (3)0.69305 (19)0.78229 (10)0.0622 (5)
H31.18500.67370.82250.075*
C40.8756 (3)0.62029 (19)0.77307 (10)0.0646 (5)
H40.84050.55120.80660.078*
C50.7224 (3)0.65110 (18)0.71357 (10)0.0581 (4)
H50.58270.60340.70810.070*
C60.7718 (2)0.75136 (16)0.66180 (9)0.0500 (4)
C70.5997 (3)0.78265 (19)0.59729 (9)0.0580 (4)
H7A0.44800.78680.61430.070*
H7B0.63290.87600.57790.070*
C80.7604 (2)0.66981 (16)0.49207 (8)0.0478 (4)
C91.0801 (3)0.75831 (19)0.44642 (10)0.0574 (4)
H91.19540.82660.44660.069*
C101.0780 (3)0.65013 (19)0.39651 (9)0.0593 (5)
H101.18800.64320.36330.071*
C110.9034 (3)0.55172 (19)0.39818 (9)0.0550 (4)
H110.89730.47660.36500.066*
H1O1.000 (4)0.889 (3)0.5791 (8)0.117 (9)*
H1N0.501 (3)0.6073 (14)0.5417 (10)0.062 (5)*
U11U22U33U12U13U23
O10.0674 (8)0.0543 (7)0.0667 (8)−0.0114 (5)0.0032 (6)0.0017 (6)
N10.0425 (7)0.0658 (9)0.0629 (8)−0.0070 (6)0.0040 (6)−0.0127 (7)
N20.0488 (7)0.0504 (8)0.0601 (8)−0.0022 (6)0.0006 (6)0.0040 (6)
N30.0495 (7)0.0547 (8)0.0500 (7)0.0018 (6)0.0006 (6)−0.0008 (6)
C10.0492 (8)0.0404 (8)0.0572 (9)0.0000 (6)0.0070 (7)−0.0069 (7)
C20.0488 (8)0.0575 (10)0.0590 (10)−0.0035 (7)−0.0001 (8)−0.0112 (8)
C30.0656 (11)0.0631 (11)0.0563 (10)0.0039 (8)−0.0026 (8)−0.0032 (8)
C40.0772 (12)0.0569 (10)0.0611 (10)−0.0049 (9)0.0134 (9)0.0010 (8)
C50.0504 (9)0.0557 (10)0.0694 (11)−0.0077 (7)0.0120 (8)−0.0116 (8)
C60.0427 (8)0.0484 (9)0.0591 (10)0.0026 (6)0.0064 (7)−0.0118 (7)
C70.0446 (8)0.0635 (10)0.0652 (10)0.0062 (7)0.0016 (8)−0.0130 (8)
C80.0426 (8)0.0499 (9)0.0494 (8)0.0026 (6)−0.0039 (7)0.0025 (7)
C90.0523 (9)0.0568 (10)0.0629 (10)−0.0025 (7)0.0042 (8)0.0124 (8)
C100.0572 (10)0.0637 (11)0.0581 (10)0.0031 (8)0.0100 (8)0.0067 (8)
C110.0581 (9)0.0561 (10)0.0503 (9)0.0067 (8)0.0019 (8)0.0012 (7)
O1—C11.367 (2)C3—H30.9300
O1—H1O0.863 (10)C4—C51.382 (3)
N1—C81.341 (2)C4—H40.9300
N1—C71.455 (2)C5—C61.387 (2)
N1—H1N0.878 (9)C5—H50.9300
N2—C91.336 (2)C6—C71.515 (2)
N2—C81.350 (2)C7—H7A0.9700
N3—C111.325 (2)C7—H7B0.9700
N3—C81.3552 (19)C9—C101.367 (2)
C1—C21.390 (2)C9—H90.9300
C1—C61.402 (2)C10—C111.380 (2)
C2—C31.367 (2)C10—H100.9300
C2—H20.9300C11—H110.9300
C3—C41.385 (3)
C1—O1—H1O107.4 (18)C5—C6—C1118.05 (15)
C8—N1—C7123.78 (14)C5—C6—C7120.21 (15)
C8—N1—H1N119.7 (12)C1—C6—C7121.74 (15)
C7—N1—H1N115.0 (12)N1—C7—C6114.25 (13)
C9—N2—C8116.03 (14)N1—C7—H7A108.7
C11—N3—C8116.12 (14)C6—C7—H7A108.7
O1—C1—C2118.23 (14)N1—C7—H7B108.7
O1—C1—C6121.74 (14)C6—C7—H7B108.7
C2—C1—C6120.03 (15)H7A—C7—H7B107.6
C3—C2—C1120.70 (15)N1—C8—N2118.73 (14)
C3—C2—H2119.7N1—C8—N3116.33 (14)
C1—C2—H2119.7N2—C8—N3124.93 (15)
C2—C3—C4120.10 (16)N2—C9—C10123.37 (16)
C2—C3—H3120.0N2—C9—H9118.3
C4—C3—H3120.0C10—C9—H9118.3
C5—C4—C3119.47 (17)C9—C10—C11116.19 (16)
C5—C4—H4120.3C9—C10—H10121.9
C3—C4—H4120.3C11—C10—H10121.9
C4—C5—C6121.60 (16)N3—C11—C10123.36 (16)
C4—C5—H5119.2N3—C11—H11118.3
C6—C5—H5119.2C10—C11—H11118.3
O1—C1—C2—C3−178.05 (15)C5—C6—C7—N1−79.8 (2)
C6—C1—C2—C32.4 (2)C1—C6—C7—N1100.33 (18)
C1—C2—C3—C4−1.1 (3)C7—N1—C8—N2−6.1 (2)
C2—C3—C4—C5−0.8 (3)C7—N1—C8—N3174.43 (14)
C3—C4—C5—C61.4 (3)C9—N2—C8—N1−178.93 (13)
C4—C5—C6—C10.0 (2)C9—N2—C8—N30.4 (2)
C4—C5—C6—C7−179.92 (15)C11—N3—C8—N1179.28 (13)
O1—C1—C6—C5178.65 (14)C11—N3—C8—N2−0.1 (2)
C2—C1—C6—C5−1.8 (2)C8—N2—C9—C10−0.5 (2)
O1—C1—C6—C7−1.5 (2)N2—C9—C10—C110.2 (2)
C2—C1—C6—C7178.06 (14)C8—N3—C11—C10−0.2 (2)
C8—N1—C7—C6−74.7 (2)C9—C10—C11—N30.2 (2)
D—H···AD—HH···AD···AD—H···A
O1—H1o···N20.86 (1)1.92 (1)2.761 (2)164 (2)
N1—H1n···N3i0.88 (1)2.15 (1)3.023 (2)176 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1o⋯N20.86 (1)1.92 (1)2.761 (2)164 (2)
N1—H1n⋯N3i0.88 (1)2.15 (1)3.023 (2)176 (2)

Symmetry code: (i) .

  3 in total

1.  A short history of SHELX.

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

2.  Charge-transfer complexes of pyrimidine Schiff bases with aromatic nitro compounds.

Authors:  Yousry M Issa; A L el-Ansary; O E Sherif; H B Hassib
Journal:  Spectrochim Acta A Mol Biomol Spectrosc       Date:  2011-04-02       Impact factor: 4.098

3.  2-[(Pyridin-3-yl-amino)-meth-yl]phenol.

Authors:  Jing Xu; Shan Gao; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-11-12
  3 in total
  3 in total

1.  2-[(Pyridin-3-yl-amino)-meth-yl]phenol.

Authors:  Jing Xu; Shan Gao; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-11-12

2.  Tris{2-[(pyrimidin-2-yl-κN)amino-meth-yl]phenol}silver(I) nitrate.

Authors:  Shan Gao; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-28

3.  Bis{μ-2-[(pyrimidin-2-yl)amino-meth-yl]phenolato}-κ(2) N (1):O;κ(2) O:N (1)-bis-({2-[(pyrimidin-2-yl-κN)amino-meth-yl]phenol}silver(I)) dihydrate.

Authors:  Shan Gao; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-28
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.