Literature DB >> 22220114

2-(1H-Imidazol-1-yl)-4,6-dimethyl-pyrimidine.

Dao-Hui Yu1, Jie-Ying Wu.   

Abstract

The asymmetric unit of the title compound, C(9)H(10)N(4), consists of two mol-ecules in which the dihedral angles between the planes of the imidazole and pyrimidine rings are 4.8 (1) and 2.1 (1)°.

Entities:  

Year:  2011        PMID: 22220114      PMCID: PMC3247496          DOI: 10.1107/S1600536811044357

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


Related literature

For related pyrimidine derivatives, see: Wu et al. (2008 ▶); Cetina et al. (2005 ▶); Liu et al. (2007 ▶).

Experimental

Crystal data

C9H10N4 M = 174.21 Monoclinic, a = 9.304 (5) Å b = 26.756 (5) Å c = 7.129 (5) Å β = 91.259 (5)° V = 1774.2 (16) Å3 Z = 8 Mo Kα radiation μ = 0.09 mm−1 T = 296 K 0.20 × 0.10 × 0.10 mm

Data collection

Bruker SMART diffractometer 11971 measured reflections 3091 independent reflections 2365 reflections with I > 2σ(I) R int = 0.040

Refinement

R[F 2 > 2σ(F 2)] = 0.064 wR(F 2) = 0.197 S = 1.14 3091 reflections 240 parameters H-atom parameters constrained Δρmax = 0.25 e Å−3 Δρmin = −0.19 e Å−3 Data collection: SMART (Bruker, 2002 ▶); cell refinement: SAINT (Bruker, 2002 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXTL. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811044357/ng5247sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811044357/ng5247Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811044357/ng5247Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C9H10N4F(000) = 736
Mr = 174.21Dx = 1.304 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71069 Å
Hall symbol: -P 2ybcCell parameters from 3786 reflections
a = 9.304 (5) Åθ = 2.7–25.4°
b = 26.756 (5) ŵ = 0.09 mm1
c = 7.129 (5) ÅT = 296 K
β = 91.259 (5)°Needle, white
V = 1774.2 (16) Å30.20 × 0.10 × 0.10 mm
Z = 8
Bruker SMART diffractometer2365 reflections with I > 2σ(I)
Radiation source: sealed tubeRint = 0.040
graphiteθmax = 25.0°, θmin = 1.5°
ω scansh = −11→10
11971 measured reflectionsk = −26→31
3091 independent reflectionsl = −8→8
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.064H-atom parameters constrained
wR(F2) = 0.197w = 1/[σ2(Fo2) + (0.0895P)2 + 0.9302P] where P = (Fo2 + 2Fc2)/3
S = 1.14(Δ/σ)max < 0.001
3091 reflectionsΔρmax = 0.25 e Å3
240 parametersΔρmin = −0.19 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: 0.008 (2)
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
N70.3875 (2)0.45208 (8)0.7788 (3)0.0472 (6)
N20.1912 (2)0.21267 (8)0.6762 (3)0.0493 (6)
N4−0.0469 (2)0.22566 (9)0.5881 (3)0.0483 (6)
N80.5461 (2)0.52131 (8)0.7336 (3)0.0461 (6)
N60.3095 (2)0.53376 (8)0.8162 (3)0.0465 (6)
C130.4215 (3)0.50025 (10)0.7736 (4)0.0420 (6)
C140.4946 (3)0.42061 (10)0.7404 (4)0.0471 (7)
N30.1114 (2)0.29410 (9)0.6535 (3)0.0513 (6)
C150.6291 (3)0.43849 (11)0.6982 (4)0.0517 (7)
H150.70340.41640.67270.062*
C40.0780 (3)0.24630 (10)0.6363 (4)0.0453 (7)
N50.0973 (3)0.56080 (10)0.9067 (4)0.0649 (8)
C50.0032 (3)0.32600 (11)0.6131 (4)0.0539 (8)
C160.6525 (3)0.48921 (11)0.6942 (4)0.0474 (7)
C7−0.1541 (3)0.25785 (11)0.5495 (4)0.0494 (7)
C6−0.1306 (3)0.30860 (11)0.5581 (4)0.0550 (8)
H6−0.20410.33090.52710.066*
C100.1743 (3)0.52165 (12)0.8750 (4)0.0552 (8)
H100.14200.48900.89030.066*
N10.4063 (3)0.18529 (10)0.7662 (5)0.0728 (9)
C110.3144 (3)0.58522 (11)0.8102 (4)0.0548 (8)
H110.39140.60510.77550.066*
C9−0.2980 (3)0.23589 (13)0.4997 (5)0.0647 (9)
H9A−0.28730.21140.40270.097*
H9B−0.36150.26190.45600.097*
H9C−0.33730.22030.60860.097*
C30.3271 (3)0.22439 (12)0.7368 (5)0.0622 (9)
H30.35930.25700.75510.075*
C180.7944 (3)0.51142 (13)0.6463 (5)0.0625 (9)
H18A0.78120.53520.54640.094*
H18B0.85820.48540.60700.094*
H18C0.83510.52790.75460.094*
C170.4608 (4)0.36581 (11)0.7441 (5)0.0664 (9)
H17A0.37080.36070.80440.100*
H17B0.53560.34840.81230.100*
H17C0.45450.35330.61800.100*
C10.1867 (3)0.16122 (11)0.6687 (5)0.0629 (9)
H10.10880.14130.63280.076*
C120.1844 (3)0.60062 (12)0.8651 (5)0.0647 (9)
H120.15690.63390.87380.078*
C80.0358 (4)0.38062 (12)0.6319 (6)0.0768 (11)
H8A0.00520.39230.75200.115*
H8B−0.01430.39870.53440.115*
H8C0.13740.38590.62140.115*
C20.3180 (3)0.14584 (13)0.7239 (6)0.0734 (10)
H20.34560.11250.73230.088*
U11U22U33U12U13U23
N70.0400 (13)0.0420 (13)0.0596 (14)−0.0005 (10)−0.0030 (10)−0.0009 (10)
N20.0380 (13)0.0443 (14)0.0659 (15)−0.0011 (10)0.0068 (11)0.0059 (11)
N40.0401 (13)0.0492 (14)0.0559 (14)−0.0035 (10)0.0065 (10)0.0015 (10)
N80.0342 (12)0.0457 (14)0.0583 (14)−0.0013 (10)−0.0026 (10)−0.0007 (10)
N60.0354 (12)0.0439 (13)0.0601 (14)0.0023 (10)−0.0018 (10)−0.0037 (10)
C130.0358 (14)0.0414 (15)0.0485 (15)0.0028 (11)−0.0041 (11)−0.0017 (11)
C140.0433 (15)0.0424 (15)0.0553 (16)0.0035 (12)−0.0057 (12)−0.0024 (12)
N30.0425 (13)0.0436 (14)0.0681 (15)−0.0002 (11)0.0125 (11)0.0031 (11)
C150.0395 (15)0.0509 (18)0.0645 (18)0.0094 (13)−0.0011 (13)−0.0025 (13)
C40.0387 (15)0.0454 (16)0.0522 (16)0.0021 (12)0.0109 (12)0.0040 (12)
N50.0360 (13)0.0625 (17)0.096 (2)0.0053 (12)0.0027 (13)−0.0125 (14)
C50.0479 (17)0.0472 (17)0.0672 (18)0.0042 (13)0.0165 (14)0.0047 (13)
C160.0366 (14)0.0505 (17)0.0548 (17)0.0018 (12)−0.0038 (12)0.0009 (12)
C70.0404 (15)0.0578 (18)0.0504 (16)0.0026 (13)0.0092 (12)0.0050 (13)
C60.0411 (16)0.0547 (19)0.0694 (19)0.0047 (13)0.0094 (14)0.0074 (14)
C100.0357 (15)0.0547 (18)0.075 (2)−0.0004 (13)0.0035 (13)−0.0041 (14)
N10.0422 (15)0.0608 (18)0.115 (2)0.0029 (13)0.0018 (15)0.0157 (16)
C110.0427 (16)0.0431 (16)0.078 (2)0.0040 (13)0.0000 (14)−0.0005 (14)
C90.0428 (17)0.081 (2)0.071 (2)−0.0022 (16)0.0011 (14)−0.0004 (17)
C30.0402 (17)0.0538 (19)0.093 (2)−0.0027 (14)−0.0002 (15)0.0081 (16)
C180.0376 (16)0.064 (2)0.086 (2)0.0005 (14)0.0039 (15)0.0028 (16)
C170.0557 (19)0.0439 (18)0.100 (2)−0.0009 (15)0.0019 (17)−0.0026 (16)
C10.0459 (17)0.0442 (17)0.099 (2)−0.0030 (14)0.0063 (16)0.0055 (16)
C120.0490 (18)0.0501 (19)0.095 (2)0.0104 (15)−0.0030 (16)−0.0094 (16)
C80.060 (2)0.0479 (19)0.124 (3)0.0022 (16)0.015 (2)0.0013 (19)
C20.0458 (18)0.0491 (19)0.126 (3)0.0060 (15)0.0120 (18)0.0158 (19)
N7—C131.328 (3)C7—C91.497 (4)
N7—C141.337 (4)C6—H60.9300
N2—C31.363 (4)C10—H100.9300
N2—C11.378 (4)N1—C31.294 (4)
N2—C41.410 (4)N1—C21.367 (4)
N4—C41.325 (4)C11—C121.344 (4)
N4—C71.342 (4)C11—H110.9300
N8—C131.326 (3)C9—H9A0.9600
N8—C161.345 (3)C9—H9B0.9600
N6—C101.373 (4)C9—H9C0.9600
N6—C111.379 (4)C3—H30.9300
N6—C131.413 (3)C18—H18A0.9600
C14—C151.379 (4)C18—H18B0.9600
C14—C171.500 (4)C18—H18C0.9600
N3—C41.321 (4)C17—H17A0.9600
N3—C51.347 (4)C17—H17B0.9600
C15—C161.375 (4)C17—H17C0.9600
C15—H150.9300C1—C21.340 (5)
N5—C101.292 (4)C1—H10.9300
N5—C121.375 (4)C12—H120.9300
C5—C61.378 (4)C8—H8A0.9600
C5—C81.498 (4)C8—H8B0.9600
C16—C181.495 (4)C8—H8C0.9600
C7—C61.377 (4)C2—H20.9300
C13—N7—C14115.3 (2)C12—C11—N6105.5 (3)
C3—N2—C1105.6 (2)C12—C11—H11127.3
C3—N2—C4126.9 (3)N6—C11—H11127.3
C1—N2—C4127.4 (2)C7—C9—H9A109.5
C4—N4—C7115.4 (2)C7—C9—H9B109.5
C13—N8—C16115.1 (2)H9A—C9—H9B109.5
C10—N6—C11106.0 (2)C7—C9—H9C109.5
C10—N6—C13126.9 (2)H9A—C9—H9C109.5
C11—N6—C13127.0 (2)H9B—C9—H9C109.5
N8—C13—N7128.9 (2)N1—C3—N2112.7 (3)
N8—C13—N6115.4 (2)N1—C3—H3123.6
N7—C13—N6115.6 (2)N2—C3—H3123.6
N7—C14—C15120.7 (3)C16—C18—H18A109.5
N7—C14—C17117.0 (3)C16—C18—H18B109.5
C15—C14—C17122.3 (3)H18A—C18—H18B109.5
C4—N3—C5114.8 (3)C16—C18—H18C109.5
C16—C15—C14119.5 (3)H18A—C18—H18C109.5
C16—C15—H15120.3H18B—C18—H18C109.5
C14—C15—H15120.3C14—C17—H17A109.5
N3—C4—N4129.1 (3)C14—C17—H17B109.5
N3—C4—N2115.2 (2)H17A—C17—H17B109.5
N4—C4—N2115.7 (2)C14—C17—H17C109.5
C10—N5—C12105.0 (3)H17A—C17—H17C109.5
N3—C5—C6120.9 (3)H17B—C17—H17C109.5
N3—C5—C8116.8 (3)C2—C1—N2105.5 (3)
C6—C5—C8122.4 (3)C2—C1—H1127.2
N8—C16—C15120.6 (2)N2—C1—H1127.2
N8—C16—C18116.9 (2)C11—C12—N5111.3 (3)
C15—C16—C18122.6 (3)C11—C12—H12124.3
N4—C7—C6120.5 (3)N5—C12—H12124.3
N4—C7—C9116.9 (3)C5—C8—H8A109.5
C6—C7—C9122.6 (3)C5—C8—H8B109.5
C7—C6—C5119.2 (3)H8A—C8—H8B109.5
C7—C6—H6120.4C5—C8—H8C109.5
C5—C6—H6120.4H8A—C8—H8C109.5
N5—C10—N6112.2 (3)H8B—C8—H8C109.5
N5—C10—H10123.9C1—C2—N1111.6 (3)
N6—C10—H10123.9C1—C2—H2124.2
C3—N1—C2104.5 (3)N1—C2—H2124.2
C16—N8—C13—N7−0.5 (4)C13—N8—C16—C18179.4 (3)
C16—N8—C13—N6179.7 (2)C14—C15—C16—N80.9 (4)
C14—N7—C13—N80.9 (4)C14—C15—C16—C18−178.9 (3)
C14—N7—C13—N6−179.3 (2)C4—N4—C7—C61.0 (4)
C10—N6—C13—N8−175.0 (3)C4—N4—C7—C9−178.3 (2)
C11—N6—C13—N83.8 (4)N4—C7—C6—C5−2.2 (4)
C10—N6—C13—N75.2 (4)C9—C7—C6—C5177.1 (3)
C11—N6—C13—N7−176.0 (3)N3—C5—C6—C71.7 (4)
C13—N7—C14—C15−0.3 (4)C8—C5—C6—C7−178.0 (3)
C13—N7—C14—C17−179.9 (3)C12—N5—C10—N60.7 (4)
N7—C14—C15—C16−0.6 (4)C11—N6—C10—N5−0.5 (4)
C17—C14—C15—C16179.0 (3)C13—N6—C10—N5178.5 (3)
C5—N3—C4—N4−1.2 (4)C10—N6—C11—C120.1 (3)
C5—N3—C4—N2179.3 (2)C13—N6—C11—C12−178.9 (3)
C7—N4—C4—N30.8 (4)C2—N1—C3—N2−0.3 (4)
C7—N4—C4—N2−179.7 (2)C1—N2—C3—N10.3 (4)
C3—N2—C4—N32.8 (4)C4—N2—C3—N1178.3 (3)
C1—N2—C4—N3−179.7 (3)C3—N2—C1—C2−0.2 (4)
C3—N2—C4—N4−176.8 (3)C4—N2—C1—C2−178.1 (3)
C1—N2—C4—N40.8 (4)N6—C11—C12—N50.3 (4)
C4—N3—C5—C6−0.1 (4)C10—N5—C12—C11−0.6 (4)
C4—N3—C5—C8179.6 (3)N2—C1—C2—N10.0 (4)
C13—N8—C16—C15−0.4 (4)C3—N1—C2—C10.2 (4)
  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.  Hydrogen-bonding and C-H...pi interactions in 7-hydroxy-3-methoxy-4-methyl-5,6,7,8-tetrahydropyrido[1,2-c]pyrimidin-1(9H)-one.

Authors:  Mario Cetina; Ante Nagl; Svjetlana Prekupec; Silvana Raić-Malić; Mladen Mintas
Journal:  Acta Crystallogr C       Date:  2005-02-19       Impact factor: 1.172

3.  4,6-Dimethyl-pyrimidin-2(1H)-one-urea-water (1/1/1).

Authors:  Feng Wu; Yun-Qian Zhang; Qian-Jiang Zhu; Sai-Feng Xue; Zhu Tao
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-07-16
  3 in total

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