Literature DB >> 25705503

Crystal structure of cyprodinil.

Youngeun Jeon1, Gihaeng Kang1, Seonghwa Cho1, Tae Ho Kim1.   

Abstract

In the title compound, C14H15N3 (systematic name: 4-cyclo-propyl-6-methyl-N-phenyl-pyrimidin-2-amine), which is the anilino-pyrimidine fungicide cyprodinil, the dihedral angles between the planes of the central pyrimidine ring and the terminal phenyl ring and the mean plane of the cyclo-propane ring system are 14.52 (11) and 88.79 (10)°, respectively. In the crystal, weak π-π inter-actions [3.8551 (11) Å] connect the dimers into chains along the b-axis direction.

Entities:  

Keywords:  crystal structure; cyprodinil; fungicide; hydrogen bonding; pyrimidin-2-amine; π–π inter­actions

Year:  2015        PMID: 25705503      PMCID: PMC4331914          DOI: 10.1107/S2056989014025742

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Related literature

For information on the fungicidal properties of the title compound, see: Sapp et al. (2003 ▸). For a related crystal structure, see: Kang et al. (2014 ▸).

Experimental

Crystal data

C14H15N3 M = 225.29 Monoclinic, a = 13.1920 (6) Å b = 5.3176 (2) Å c = 16.8641 (7) Å β = 100.288 (2)° V = 1163.99 (8) Å3 Z = 4 Mo Kα radiation μ = 0.08 mm−1 T = 173 K 0.45 × 0.22 × 0.18 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▸) T min = 0.965, T max = 0.986 18116 measured reflections 2864 independent reflections 2463 reflections with I > 2σ(I) R int = 0.056

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.166 S = 1.14 2864 reflections 155 parameters H-atom parameters constrained Δρmax = 0.29 e Å−3 Δρmin = −0.31 e Å−3

Data collection: APEX2 (Bruker, 2009 ▸); cell refinement: SAINT (Bruker, 2009 ▸); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▸); program(s) used to refine structure: SHELXTL; molecular graphics: DIAMOND (Brandenburg, 2010 ▸); software used to prepare material for publication: SHELXTL. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S2056989014025742/hg5422sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989014025742/hg5422Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S2056989014025742/hg5422Isup3.cml Click here for additional data file. . DOI: 10.1107/S2056989014025742/hg5422fig1.tif The asymmetric unit of the title compound with the atom numbering scheme. Displacement ellipsoids are drawn at the 50% probability level. H atoms are shown as small spheres of arbitrary radius. Click here for additional data file. a . DOI: 10.1107/S2056989014025742/hg5422fig2.tif Crystal packing viewed along the a axis. The inter­molecular N—H⋯N hydrogen bonds, and weak π–π inter­actions are shown as dashed lines. CCDC reference: 1035821 Additional supporting information: crystallographic information; 3D view; checkCIF report
C14H15N3F(000) = 480
Mr = 225.29Dx = 1.286 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 8168 reflections
a = 13.1920 (6) Åθ = 2.5–28.2°
b = 5.3176 (2) ŵ = 0.08 mm1
c = 16.8641 (7) ÅT = 173 K
β = 100.288 (2)°Block, colourless
V = 1163.99 (8) Å30.45 × 0.22 × 0.18 mm
Z = 4
Bruker APEXII CCD diffractometer2864 independent reflections
Radiation source: fine-focus sealed tube2463 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.056
φ and ω scansθmax = 28.3°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −17→17
Tmin = 0.965, Tmax = 0.986k = −7→7
18116 measured reflectionsl = −21→22
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) = 0.166H-atom parameters constrained
S = 1.14w = 1/[σ2(Fo2) + (0.0577P)2 + 1.3715P] where P = (Fo2 + 2Fc2)/3
2864 reflections(Δ/σ)max < 0.001
155 parametersΔρmax = 0.29 e Å3
0 restraintsΔρmin = −0.31 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
N10.64381 (12)0.1086 (3)0.81833 (9)0.0210 (3)
H1N0.58820.06970.78340.025*
N20.70730 (12)0.3584 (3)0.93020 (9)0.0201 (3)
N30.53921 (12)0.4215 (3)0.84955 (9)0.0206 (3)
C10.83033 (14)0.0059 (4)0.85440 (11)0.0246 (4)
H10.84360.14370.89060.030*
C20.90995 (15)−0.1513 (4)0.84207 (12)0.0277 (4)
H20.9778−0.11830.87000.033*
C30.89324 (15)−0.3555 (4)0.79011 (12)0.0256 (4)
H30.9486−0.46210.78270.031*
C40.79368 (15)−0.4010 (4)0.74907 (11)0.0241 (4)
H40.7808−0.53960.71310.029*
C50.71331 (14)−0.2457 (4)0.76022 (11)0.0208 (4)
H50.6458−0.27870.73180.025*
C60.73029 (14)−0.0402 (4)0.81301 (10)0.0195 (4)
C70.63140 (14)0.3035 (4)0.86853 (10)0.0189 (4)
C80.69016 (14)0.5539 (4)0.97648 (10)0.0208 (4)
C90.59859 (15)0.6871 (4)0.96202 (11)0.0233 (4)
H90.58730.82510.99510.028*
C100.52353 (14)0.6127 (4)0.89742 (11)0.0209 (4)
C110.77222 (15)0.6184 (4)1.04550 (11)0.0246 (4)
H110.75670.76221.07960.029*
C120.83749 (15)0.4101 (4)1.08962 (12)0.0276 (4)
H12A0.85850.42581.14880.033*
H12B0.82390.23601.06980.033*
C130.88371 (16)0.5880 (4)1.03804 (12)0.0300 (5)
H13A0.89890.52390.98630.036*
H13B0.93340.71361.06530.036*
C140.42255 (15)0.7483 (4)0.87894 (12)0.0255 (4)
H14A0.42830.88950.84270.038*
H14B0.40430.81180.92910.038*
H14C0.36900.63240.85300.038*
U11U22U33U12U13U23
N10.0185 (7)0.0259 (8)0.0165 (7)0.0004 (6)−0.0023 (5)−0.0027 (6)
N20.0205 (7)0.0238 (8)0.0145 (7)0.0001 (6)−0.0009 (5)0.0008 (6)
N30.0196 (7)0.0250 (8)0.0164 (7)0.0014 (6)0.0010 (5)0.0005 (6)
C10.0218 (9)0.0278 (10)0.0221 (9)−0.0006 (8)−0.0016 (7)−0.0040 (8)
C20.0209 (9)0.0329 (11)0.0270 (9)0.0014 (8)−0.0016 (7)−0.0027 (8)
C30.0242 (9)0.0279 (10)0.0243 (9)0.0047 (8)0.0031 (7)0.0001 (8)
C40.0290 (10)0.0234 (10)0.0194 (8)−0.0003 (8)0.0027 (7)−0.0025 (7)
C50.0226 (9)0.0220 (9)0.0166 (8)−0.0016 (7)0.0002 (6)0.0006 (7)
C60.0207 (8)0.0227 (9)0.0146 (7)0.0004 (7)0.0014 (6)0.0019 (7)
C70.0200 (8)0.0221 (9)0.0138 (7)0.0002 (7)0.0007 (6)0.0016 (7)
C80.0227 (9)0.0233 (9)0.0151 (8)−0.0009 (7)0.0005 (6)0.0016 (7)
C90.0258 (9)0.0246 (10)0.0181 (8)0.0028 (8)0.0001 (7)−0.0033 (7)
C100.0219 (9)0.0235 (9)0.0167 (8)0.0015 (7)0.0018 (6)0.0022 (7)
C110.0250 (9)0.0284 (10)0.0180 (8)0.0005 (8)−0.0025 (7)−0.0035 (7)
C120.0244 (9)0.0333 (11)0.0216 (9)0.0006 (8)−0.0053 (7)0.0005 (8)
C130.0245 (9)0.0382 (12)0.0247 (9)−0.0057 (8)−0.0022 (7)−0.0022 (9)
C140.0232 (9)0.0289 (10)0.0226 (9)0.0054 (8)−0.0005 (7)−0.0004 (8)
N1—C71.367 (2)C5—H50.9500
N1—C61.404 (2)C8—C91.384 (3)
N1—H1N0.8800C8—C111.481 (2)
N2—C71.341 (2)C9—C101.392 (3)
N2—C81.343 (2)C9—H90.9500
N3—C101.337 (2)C10—C141.498 (3)
N3—C71.355 (2)C11—C131.507 (3)
C1—C21.387 (3)C11—C121.514 (3)
C1—C61.400 (2)C11—H111.0000
C1—H10.9500C12—C131.488 (3)
C2—C31.388 (3)C12—H12A0.9900
C2—H20.9500C12—H12B0.9900
C3—C41.392 (3)C13—H13A0.9900
C3—H30.9500C13—H13B0.9900
C4—C51.383 (3)C14—H14A0.9800
C4—H40.9500C14—H14B0.9800
C5—C61.402 (3)C14—H14C0.9800
C7—N1—C6130.97 (15)C8—C9—H9121.0
C7—N1—H1N114.5C10—C9—H9121.0
C6—N1—H1N114.5N3—C10—C9121.56 (17)
C7—N2—C8116.06 (16)N3—C10—C14117.93 (16)
C10—N3—C7116.01 (16)C9—C10—C14120.50 (17)
C2—C1—C6119.45 (18)C8—C11—C13119.78 (16)
C2—C1—H1120.3C8—C11—C12119.22 (18)
C6—C1—H1120.3C13—C11—C1258.99 (14)
C1—C2—C3121.81 (18)C8—C11—H11115.7
C1—C2—H2119.1C13—C11—H11115.7
C3—C2—H2119.1C12—C11—H11115.7
C2—C3—C4118.62 (18)C13—C12—C1160.26 (14)
C2—C3—H3120.7C13—C12—H12A117.7
C4—C3—H3120.7C11—C12—H12A117.7
C5—C4—C3120.47 (18)C13—C12—H12B117.7
C5—C4—H4119.8C11—C12—H12B117.7
C3—C4—H4119.8H12A—C12—H12B114.9
C4—C5—C6120.82 (17)C12—C13—C1160.74 (14)
C4—C5—H5119.6C12—C13—H13A117.7
C6—C5—H5119.6C11—C13—H13A117.7
C1—C6—C5118.84 (17)C12—C13—H13B117.7
C1—C6—N1125.02 (17)C11—C13—H13B117.7
C5—C6—N1116.12 (16)H13A—C13—H13B114.8
N2—C7—N3126.65 (17)C10—C14—H14A109.5
N2—C7—N1119.35 (16)C10—C14—H14B109.5
N3—C7—N1114.00 (16)H14A—C14—H14B109.5
N2—C8—C9121.73 (17)C10—C14—H14C109.5
N2—C8—C11117.43 (17)H14A—C14—H14C109.5
C9—C8—C11120.82 (17)H14B—C14—H14C109.5
C8—C9—C10117.96 (18)
C6—C1—C2—C3−0.5 (3)C6—N1—C7—N3172.68 (17)
C1—C2—C3—C40.5 (3)C7—N2—C8—C91.2 (3)
C2—C3—C4—C5−0.2 (3)C7—N2—C8—C11179.58 (16)
C3—C4—C5—C6−0.1 (3)N2—C8—C9—C100.0 (3)
C2—C1—C6—C50.2 (3)C11—C8—C9—C10−178.32 (18)
C2—C1—C6—N1−178.05 (18)C7—N3—C10—C91.0 (3)
C4—C5—C6—C10.1 (3)C7—N3—C10—C14−179.81 (17)
C4—C5—C6—N1178.52 (17)C8—C9—C10—N3−1.2 (3)
C7—N1—C6—C1−8.8 (3)C8—C9—C10—C14179.64 (18)
C7—N1—C6—C5172.85 (18)N2—C8—C11—C1335.3 (3)
C8—N2—C7—N3−1.5 (3)C9—C8—C11—C13−146.3 (2)
C8—N2—C7—N1179.34 (16)N2—C8—C11—C12−33.6 (3)
C10—N3—C7—N20.4 (3)C9—C8—C11—C12144.84 (19)
C10—N3—C7—N1179.63 (16)C8—C11—C12—C13109.1 (2)
C6—N1—C7—N2−8.0 (3)C8—C11—C13—C12−108.2 (2)
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