Literature DB >> 21587476

9-(1,1-Dimethyl-3-oxobut-yl)adenine.

Dulin Kong, Mingshu Wu, Huiyan Li, Jingya Ma.   

Abstract

The title compound, C(11)H(15)N(5)O, crystallizes with two independent mol-ecules in the asymmetric unit, both of which contain essentially planar imidazole and pyrimidine rings [maximum deviations = 0.002 (2) and 0.026 (2) Å, respectively, for the first mol-ecule, and 0.001 (2) and 0.025 (2) Å for the second]; the dihedral angles between the rings are 2.1 (2) and 1.7 (2)° in the two mol-ecules. The crystal structure is stabilized by inter-molecular N-H⋯N hydrogen bonds, defining chains along a, which are further linked by weak inter-molecular π-π contacts [centroid centroid distance = 3.7989 (16) Å] into planes parallel to (01).

Entities:  

Year:  2010        PMID: 21587476      PMCID: PMC2983190          DOI: 10.1107/S1600536810034628

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


Related literature

For the synthesis of the title compound, see: Jiang & Tang (1995 ▶). For the biological activity of related compounds, see: Jeffery et al. (2000 ▶); Bayes et al. (2003 ▶). For related structures, see: Bo et al. (2006 ▶); Deng et al. (1995 ▶); Wei et al. (2007 ▶); Yu et al. (1990 ▶).

Experimental

Crystal data

C11H15N5O M = 233.28 Triclinic, a = 8.2565 (8) Å b = 11.2229 (11) Å c = 13.4021 (13) Å α = 78.421 (1)° β = 89.551 (2)° γ = 88.483 (1)° V = 1216.2 (2) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 298 K 0.48 × 0.47 × 0.14 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.96, T max = 0.99 6288 measured reflections 4208 independent reflections 2538 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.162 S = 1.06 4208 reflections 313 parameters H-atom parameters constrained Δρmax = 0.24 e Å−3 Δρmin = −0.22 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: Mercury (Macrae et al., 2006 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810034628/bg2361sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810034628/bg2361Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C11H15N5OZ = 4
Mr = 233.28F(000) = 496
Triclinic, P1Dx = 1.274 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 8.2565 (8) ÅCell parameters from 1894 reflections
b = 11.2229 (11) Åθ = 2.7–24.3°
c = 13.4021 (13) ŵ = 0.09 mm1
α = 78.421 (1)°T = 298 K
β = 89.551 (2)°Block, colourless
γ = 88.483 (1)°0.48 × 0.47 × 0.14 mm
V = 1216.2 (2) Å3
Bruker APEXII CCD area-detector diffractometer4208 independent reflections
Radiation source: fine-focus sealed tube2538 reflections with I > 2σ(I)
graphiteRint = 0.030
phi and ω scansθmax = 25.0°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −9→9
Tmin = 0.96, Tmax = 0.99k = −13→12
6288 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)] = 0.056Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.162H-atom parameters constrained
S = 1.06w = 1/[σ2(Fo2) + (0.0626P)2 + 0.3212P] where P = (Fo2 + 2Fc2)/3
4208 reflections(Δ/σ)max < 0.001
313 parametersΔρmax = 0.24 e Å3
0 restraintsΔρmin = −0.22 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
N10.2572 (3)0.8076 (2)0.01198 (17)0.0416 (6)
N20.3297 (3)0.9315 (2)0.11520 (19)0.0483 (6)
N3−0.0300 (3)0.7899 (2)0.0569 (2)0.0498 (7)
N4−0.1029 (3)0.9008 (2)0.18776 (19)0.0480 (7)
N50.0816 (3)1.0018 (2)0.26608 (19)0.0529 (7)
H5A0.00591.01650.30670.063*
H5B0.17761.02750.27200.063*
N60.7455 (3)0.2103 (2)0.49198 (17)0.0410 (6)
N70.8180 (3)0.0572 (2)0.41366 (18)0.0437 (6)
N80.4600 (3)0.2330 (2)0.44317 (19)0.0493 (7)
N90.3889 (3)0.0939 (2)0.33544 (19)0.0471 (6)
N100.5742 (3)−0.0341 (2)0.2781 (2)0.0542 (7)
H10A0.5002−0.05470.24050.065*
H10B0.6704−0.06530.27790.065*
O10.4200 (4)0.5832 (2)0.1274 (2)0.0890 (9)
O20.9215 (3)0.3952 (2)0.34758 (19)0.0747 (7)
C10.3770 (4)0.8703 (3)0.0464 (2)0.0477 (8)
H10.48320.86950.02290.057*
C20.1666 (3)0.9074 (2)0.1277 (2)0.0378 (7)
C30.1211 (3)0.8310 (2)0.0644 (2)0.0386 (7)
C4−0.1302 (4)0.8313 (3)0.1201 (3)0.0514 (8)
H4−0.23710.80820.11690.062*
C50.0503 (3)0.9394 (3)0.1940 (2)0.0420 (7)
C60.2743 (4)0.7212 (3)−0.0589 (2)0.0478 (8)
C70.2204 (4)0.5963 (3)−0.0013 (2)0.0559 (9)
H7A0.10400.60090.00830.067*
H7B0.24140.5381−0.04470.067*
C80.2954 (5)0.5463 (3)0.1002 (3)0.0608 (9)
C90.2085 (5)0.4448 (5)0.1656 (4)0.1136 (18)
H9A0.27380.41090.22390.170*
H9B0.18820.38300.12740.170*
H9C0.10750.47510.18780.170*
C100.1629 (4)0.7668 (3)−0.1489 (2)0.0661 (10)
H10C0.05310.7699−0.12530.099*
H10D0.17130.7126−0.19590.099*
H10E0.19390.8467−0.18260.099*
C110.4479 (4)0.7178 (3)−0.0957 (3)0.0684 (10)
H11A0.47840.7983−0.12830.103*
H11B0.45750.6646−0.14340.103*
H11C0.51790.6885−0.03870.103*
C120.8644 (4)0.1328 (3)0.4701 (2)0.0452 (7)
H120.97010.13340.49340.054*
C130.6556 (3)0.0876 (2)0.3974 (2)0.0371 (7)
C140.6081 (3)0.1810 (2)0.4449 (2)0.0383 (7)
C150.3592 (4)0.1818 (3)0.3882 (2)0.0510 (8)
H150.25270.21130.38600.061*
C160.5397 (3)0.0464 (3)0.3364 (2)0.0403 (7)
C170.7629 (4)0.3162 (3)0.5422 (2)0.0485 (8)
C180.7157 (4)0.4315 (3)0.4650 (2)0.0544 (9)
H18A0.60110.42860.45060.065*
H18B0.73030.50070.49700.065*
C190.8052 (4)0.4549 (3)0.3652 (3)0.0539 (8)
C200.7440 (5)0.5588 (4)0.2860 (3)0.0932 (14)
H20A0.81960.57390.23040.140*
H20B0.73190.63010.31500.140*
H20C0.64090.53930.26160.140*
C210.6479 (5)0.3011 (3)0.6328 (3)0.0689 (10)
H21A0.53990.29080.61060.103*
H21B0.65030.37220.66240.103*
H21C0.68100.23090.68260.103*
C220.9356 (4)0.3201 (3)0.5801 (3)0.0658 (10)
H22A0.96170.24570.62710.099*
H22B0.94490.38750.61370.099*
H22C1.00910.32960.52340.099*
U11U22U33U12U13U23
N10.0432 (15)0.0402 (14)0.0416 (14)−0.0020 (11)−0.0024 (11)−0.0081 (12)
N20.0399 (15)0.0545 (16)0.0540 (16)−0.0090 (12)0.0030 (12)−0.0182 (14)
N30.0428 (15)0.0531 (16)0.0546 (16)−0.0070 (13)−0.0073 (13)−0.0124 (13)
N40.0373 (15)0.0555 (16)0.0543 (16)−0.0047 (12)−0.0040 (12)−0.0179 (14)
N50.0375 (14)0.0680 (18)0.0615 (18)−0.0062 (12)0.0024 (12)−0.0322 (15)
N60.0405 (14)0.0402 (14)0.0443 (15)−0.0105 (11)−0.0026 (11)−0.0117 (12)
N70.0405 (15)0.0447 (15)0.0468 (15)−0.0047 (11)−0.0044 (11)−0.0107 (12)
N80.0414 (15)0.0525 (16)0.0564 (17)−0.0053 (12)0.0008 (12)−0.0162 (13)
N90.0362 (14)0.0584 (17)0.0485 (15)−0.0103 (12)0.0028 (11)−0.0141 (13)
N100.0401 (15)0.0626 (17)0.0674 (18)−0.0084 (13)−0.0063 (13)−0.0296 (15)
O10.105 (2)0.0779 (19)0.0757 (19)−0.0019 (17)−0.0336 (17)0.0054 (15)
O20.0770 (18)0.0712 (17)0.0722 (17)−0.0083 (15)0.0210 (14)−0.0060 (14)
C10.0407 (18)0.0519 (19)0.0516 (19)−0.0047 (15)0.0015 (15)−0.0127 (16)
C20.0346 (16)0.0395 (16)0.0397 (16)−0.0041 (13)−0.0008 (13)−0.0086 (14)
C30.0356 (17)0.0368 (16)0.0401 (17)−0.0022 (13)−0.0043 (13)0.0003 (13)
C40.0369 (18)0.057 (2)0.061 (2)−0.0090 (15)−0.0038 (16)−0.0118 (18)
C50.0388 (17)0.0430 (17)0.0443 (18)−0.0021 (13)−0.0043 (14)−0.0090 (15)
C60.066 (2)0.0417 (18)0.0365 (17)0.0014 (15)−0.0023 (15)−0.0108 (14)
C70.072 (2)0.0430 (18)0.055 (2)−0.0013 (16)−0.0081 (17)−0.0142 (16)
C80.071 (2)0.050 (2)0.057 (2)0.0128 (19)0.001 (2)−0.0020 (18)
C90.082 (3)0.136 (4)0.094 (3)0.003 (3)0.021 (3)0.046 (3)
C100.090 (3)0.064 (2)0.044 (2)0.001 (2)−0.0139 (18)−0.0098 (17)
C110.076 (3)0.072 (2)0.061 (2)0.007 (2)0.0088 (19)−0.025 (2)
C120.0390 (17)0.0495 (18)0.0470 (18)−0.0084 (14)−0.0061 (14)−0.0085 (15)
C130.0333 (16)0.0371 (16)0.0392 (16)−0.0083 (12)0.0007 (12)−0.0023 (13)
C140.0366 (17)0.0387 (16)0.0385 (16)−0.0105 (13)0.0033 (13)−0.0043 (13)
C150.0388 (18)0.061 (2)0.053 (2)−0.0028 (15)0.0017 (15)−0.0096 (17)
C160.0384 (17)0.0437 (17)0.0392 (17)−0.0127 (14)0.0050 (13)−0.0078 (14)
C170.055 (2)0.0488 (19)0.0442 (18)−0.0177 (15)0.0027 (15)−0.0142 (15)
C180.060 (2)0.0439 (19)0.063 (2)−0.0120 (16)0.0047 (17)−0.0175 (17)
C190.054 (2)0.051 (2)0.056 (2)−0.0205 (17)−0.0019 (17)−0.0063 (17)
C200.086 (3)0.108 (3)0.073 (3)−0.002 (3)−0.013 (2)0.012 (3)
C210.083 (3)0.074 (2)0.055 (2)−0.020 (2)0.0121 (19)−0.0231 (19)
C220.071 (2)0.065 (2)0.066 (2)−0.0249 (19)−0.0131 (19)−0.0202 (19)
N1—C11.364 (3)C7—C81.495 (5)
N1—C31.368 (3)C7—H7A0.9700
N1—C61.491 (3)C7—H7B0.9700
N2—C11.307 (4)C8—C91.488 (5)
N2—C21.383 (3)C9—H9A0.9600
N3—C41.320 (4)C9—H9B0.9600
N3—C31.353 (3)C9—H9C0.9600
N4—C41.334 (4)C10—H10C0.9600
N4—C51.356 (3)C10—H10D0.9600
N5—C51.333 (3)C10—H10E0.9600
N5—H5A0.8600C11—H11A0.9600
N5—H5B0.8600C11—H11B0.9600
N6—C121.364 (4)C11—H11C0.9600
N6—C141.382 (3)C12—H120.9300
N6—C171.489 (3)C13—C141.378 (4)
N7—C121.311 (3)C13—C161.409 (4)
N7—C131.383 (3)C15—H150.9300
N8—C151.331 (4)C17—C211.520 (4)
N8—C141.339 (3)C17—C221.522 (4)
N9—C151.340 (4)C17—C181.530 (4)
N9—C161.341 (3)C18—C191.502 (5)
N10—C161.332 (3)C18—H18A0.9700
N10—H10A0.8600C18—H18B0.9700
N10—H10B0.8600C19—C201.491 (5)
O1—C81.205 (4)C20—H20A0.9600
O2—C191.205 (4)C20—H20B0.9600
C1—H10.9300C20—H20C0.9600
C2—C31.381 (4)C21—H21A0.9600
C2—C51.392 (4)C21—H21B0.9600
C4—H40.9300C21—H21C0.9600
C6—C111.514 (5)C22—H22A0.9600
C6—C101.519 (4)C22—H22B0.9600
C6—C71.534 (4)C22—H22C0.9600
C1—N1—C3105.2 (2)C6—C10—H10E109.5
C1—N1—C6127.4 (2)H10C—C10—H10E109.5
C3—N1—C6127.1 (2)H10D—C10—H10E109.5
C1—N2—C2104.0 (2)C6—C11—H11A109.5
C4—N3—C3110.7 (2)C6—C11—H11B109.5
C4—N4—C5117.3 (3)H11A—C11—H11B109.5
C5—N5—H5A120.0C6—C11—H11C109.5
C5—N5—H5B120.0H11A—C11—H11C109.5
H5A—N5—H5B120.0H11B—C11—H11C109.5
C12—N6—C14105.3 (2)N7—C12—N6114.8 (2)
C12—N6—C17127.9 (2)N7—C12—H12122.6
C14—N6—C17126.3 (2)N6—C12—H12122.6
C12—N7—C13103.0 (2)C14—C13—N7111.5 (2)
C15—N8—C14110.7 (2)C14—C13—C16117.1 (3)
C15—N9—C16118.3 (2)N7—C13—C16131.2 (3)
C16—N10—H10A120.0N8—C14—C13126.6 (3)
C16—N10—H10B120.0N8—C14—N6127.9 (2)
H10A—N10—H10B120.0C13—C14—N6105.5 (2)
N2—C1—N1114.3 (3)N8—C15—N9129.4 (3)
N2—C1—H1122.9N8—C15—H15115.3
N1—C1—H1122.9N9—C15—H15115.3
C3—C2—N2110.0 (2)N10—C16—N9119.0 (2)
C3—C2—C5117.7 (3)N10—C16—C13123.3 (3)
N2—C2—C5132.2 (2)N9—C16—C13117.7 (2)
N3—C3—N1127.9 (3)N6—C17—C21108.4 (2)
N3—C3—C2125.6 (3)N6—C17—C22110.1 (3)
N1—C3—C2106.5 (2)C21—C17—C22108.8 (3)
N3—C4—N4130.4 (3)N6—C17—C18108.0 (2)
N3—C4—H4114.8C21—C17—C18109.6 (3)
N4—C4—H4114.8C22—C17—C18111.8 (3)
N5—C5—N4117.8 (3)C19—C18—C17117.3 (3)
N5—C5—C2123.9 (3)C19—C18—H18A108.0
N4—C5—C2118.2 (2)C17—C18—H18A108.0
N1—C6—C11109.7 (2)C19—C18—H18B108.0
N1—C6—C10107.7 (2)C17—C18—H18B108.0
C11—C6—C10109.7 (3)H18A—C18—H18B107.2
N1—C6—C7107.6 (2)O2—C19—C20119.9 (3)
C11—C6—C7112.1 (3)O2—C19—C18123.5 (3)
C10—C6—C7109.9 (3)C20—C19—C18116.6 (3)
C8—C7—C6117.9 (3)C19—C20—H20A109.5
C8—C7—H7A107.8C19—C20—H20B109.5
C6—C7—H7A107.8H20A—C20—H20B109.5
C8—C7—H7B107.8C19—C20—H20C109.5
C6—C7—H7B107.8H20A—C20—H20C109.5
H7A—C7—H7B107.2H20B—C20—H20C109.5
O1—C8—C9121.4 (4)C17—C21—H21A109.5
O1—C8—C7122.9 (3)C17—C21—H21B109.5
C9—C8—C7115.7 (4)H21A—C21—H21B109.5
C8—C9—H9A109.5C17—C21—H21C109.5
C8—C9—H9B109.5H21A—C21—H21C109.5
H9A—C9—H9B109.5H21B—C21—H21C109.5
C8—C9—H9C109.5C17—C22—H22A109.5
H9A—C9—H9C109.5C17—C22—H22B109.5
H9B—C9—H9C109.5H22A—C22—H22B109.5
C6—C10—H10C109.5C17—C22—H22C109.5
C6—C10—H10D109.5H22A—C22—H22C109.5
H10C—C10—H10D109.5H22B—C22—H22C109.5
C2—N2—C1—N10.2 (3)C13—N7—C12—N6−0.1 (3)
C3—N1—C1—N2−0.3 (3)C14—N6—C12—N70.3 (3)
C6—N1—C1—N2−174.2 (3)C17—N6—C12—N7−171.4 (3)
C1—N2—C2—C30.0 (3)C12—N7—C13—C14−0.1 (3)
C1—N2—C2—C5175.5 (3)C12—N7—C13—C16174.6 (3)
C4—N3—C3—N1179.6 (3)C15—N8—C14—C130.1 (4)
C4—N3—C3—C2−1.0 (4)C15—N8—C14—N6178.7 (3)
C1—N1—C3—N3179.7 (3)N7—C13—C14—N8179.1 (3)
C6—N1—C3—N3−6.4 (5)C16—C13—C14—N83.6 (4)
C1—N1—C3—C20.2 (3)N7—C13—C14—N60.2 (3)
C6—N1—C3—C2174.2 (2)C16—C13—C14—N6−175.2 (2)
N2—C2—C3—N3−179.6 (3)C12—N6—C14—N8−179.1 (3)
C5—C2—C3—N34.2 (4)C17—N6—C14—N8−7.2 (5)
N2—C2—C3—N1−0.1 (3)C12—N6—C14—C13−0.3 (3)
C5—C2—C3—N1−176.4 (2)C17—N6—C14—C13171.6 (3)
C3—N3—C4—N4−1.9 (5)C14—N8—C15—N9−2.5 (5)
C5—N4—C4—N31.4 (5)C16—N9—C15—N80.8 (5)
C4—N4—C5—N5−175.5 (3)C15—N9—C16—N10−174.7 (3)
C4—N4—C5—C22.1 (4)C15—N9—C16—C133.2 (4)
C3—C2—C5—N5172.9 (3)C14—C13—C16—N10172.7 (3)
N2—C2—C5—N5−2.3 (5)N7—C13—C16—N10−1.7 (5)
C3—C2—C5—N4−4.5 (4)C14—C13—C16—N9−5.2 (4)
N2—C2—C5—N4−179.8 (3)N7—C13—C16—N9−179.6 (3)
C1—N1—C6—C11−4.0 (4)C12—N6—C17—C21−126.0 (3)
C3—N1—C6—C11−176.7 (3)C14—N6—C17—C2164.0 (4)
C1—N1—C6—C10−123.4 (3)C12—N6—C17—C22−7.0 (4)
C3—N1—C6—C1064.0 (4)C14—N6—C17—C22−177.1 (3)
C1—N1—C6—C7118.2 (3)C12—N6—C17—C18115.3 (3)
C3—N1—C6—C7−54.5 (4)C14—N6—C17—C18−54.7 (4)
N1—C6—C7—C8−52.1 (4)N6—C17—C18—C19−56.0 (3)
C11—C6—C7—C868.6 (4)C21—C17—C18—C19−173.9 (3)
C10—C6—C7—C8−169.1 (3)C22—C17—C18—C1965.3 (3)
C6—C7—C8—O1−18.3 (5)C17—C18—C19—O2−8.0 (5)
C6—C7—C8—C9163.2 (3)C17—C18—C19—C20172.5 (3)
D—H···AD—HH···AD···AD—H···A
N10—H10B···N4i0.862.283.051 (3)149
N10—H10A···N2ii0.862.233.072 (3)166
N5—H5B···N9iii0.862.162.988 (3)161
N5—H5A···N7iv0.862.203.064 (3)178
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N10—H10B⋯N4i0.862.283.051 (3)149
N10—H10A⋯N2ii0.862.233.072 (3)166
N5—H5B⋯N9iii0.862.162.988 (3)161
N5—H5A⋯N7iv0.862.203.064 (3)178

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .

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