Literature DB >> 26594438

Crystal structure of fenclorim.

Eunjin Kwon1, Jineun Kim1, Gihaeng Kang1, Tae Ho Kim1.   

Abstract

In the title compound, C10H6Cl2N2 (systematic name: 4,6-di-chloro-2-phenyl-pyrimidine), which is used commercially as the herbicide safener, fenclorim, the dihedral angle between the di-chloro-pyrimidyl and phenyl rings is 9.45 (10)°. In the crystal, C-H⋯N hydrogen bonds link adjacent mol-ecules, forming chains along the c-axis direction. In addition, weak inter-molecular C-Cl⋯π [3.6185 (10) Å] and π-π [3.8796 (11) Å] inter-actions are present, forming a three-dimensional network.

Entities:  

Keywords:  C—Cl⋯π inter­actions; crystal structure; fenclorim; herbicide; hydrogen bonding; pyrimidine; π–π inter­actions

Year:  2015        PMID: 26594438      PMCID: PMC4647348          DOI: 10.1107/S2056989015016187

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Related literature

For information on the herbicidal properties of the title compound, see: Wu et al. (1999 ▸). For a related crystal structure, see: Leban & Polanc (1992 ▸).

Experimental

Crystal data

C10H6Cl2N2 M = 225.07 Monoclinic, a = 5.6210 (6) Å b = 17.0659 (18) Å c = 10.2582 (12) Å β = 99.690 (6)° V = 970.00 (19) Å3 Z = 4 Mo Kα radiation μ = 0.62 mm−1 T = 173 K 0.16 × 0.06 × 0.04 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2013 ▸) T min = 0.690, T max = 0.746 9071 measured reflections 2212 independent reflections 1750 reflections with I > 2σ(I) R int = 0.034

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.077 S = 1.07 2212 reflections 127 parameters H-atom parameters constrained Δρmax = 0.28 e Å−3 Δρmin = −0.23 e Å−3

Data collection: APEX2 (Bruker, 2013 ▸); cell refinement: SAINT (Bruker, 2013 ▸); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▸); program(s) used to refine structure: SHELXL2013 (Sheldrick, 2015 ▸); molecular graphics: DIAMOND (Brandenburg, 2010 ▸); software used to prepare material for publication: SHELXTL (Sheldrick, 2008 ▸). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S2056989015016187/sj5469sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015016187/sj5469Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S2056989015016187/sj5469Isup3.cml Click here for additional data file. . DOI: 10.1107/S2056989015016187/sj5469fig1.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/S2056989015016187/sj5469fig2.tif Crystal packing viewed along the a axis. The inter­molecular inter­actions are shown as dashed lines. CCDC reference: 1421258 Additional supporting information: crystallographic information; 3D view; checkCIF report
C10H6Cl2N2F(000) = 456
Mr = 225.07Dx = 1.541 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
a = 5.6210 (6) ÅCell parameters from 2286 reflections
b = 17.0659 (18) Åθ = 2.3–25.9°
c = 10.2582 (12) ŵ = 0.62 mm1
β = 99.690 (6)°T = 173 K
V = 970.00 (19) Å3Plate, colourless
Z = 40.16 × 0.06 × 0.04 mm
Bruker APEXII CCD diffractometer1750 reflections with I > 2σ(I)
φ and ω scansRint = 0.034
Absorption correction: multi-scan (SADABS; Bruker, 2013)θmax = 27.5°, θmin = 2.3°
Tmin = 0.690, Tmax = 0.746h = −6→7
9071 measured reflectionsk = −19→22
2212 independent reflectionsl = −13→9
Refinement on F20 restraints
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.034H-atom parameters constrained
wR(F2) = 0.077w = 1/[σ2(Fo2) + (0.0277P)2 + 0.269P] where P = (Fo2 + 2Fc2)/3
S = 1.07(Δ/σ)max < 0.001
2212 reflectionsΔρmax = 0.28 e Å3
127 parametersΔρmin = −0.23 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.
xyzUiso*/Ueq
Cl10.65642 (9)0.34546 (3)−0.36827 (4)0.04016 (15)
Cl20.00001 (9)0.21187 (3)−0.11631 (4)0.03800 (15)
N10.6078 (2)0.37521 (8)−0.12511 (13)0.0265 (3)
N20.3094 (2)0.31826 (8)−0.01497 (13)0.0251 (3)
C10.5151 (3)0.33485 (10)−0.23126 (16)0.0266 (4)
C20.3205 (3)0.28518 (10)−0.24028 (16)0.0274 (4)
H20.25510.2580−0.31900.033*
C30.2296 (3)0.27863 (10)−0.12406 (16)0.0258 (4)
C40.4978 (3)0.36583 (9)−0.01979 (15)0.0239 (4)
C50.5944 (3)0.41068 (10)0.10104 (15)0.0248 (4)
C60.4715 (3)0.41288 (10)0.20807 (16)0.0294 (4)
H60.32400.38510.20440.035*
C70.5644 (4)0.45554 (11)0.31979 (17)0.0355 (4)
H70.48090.45660.39290.043*
C80.7773 (4)0.49654 (12)0.32573 (18)0.0381 (5)
H80.83950.52590.40260.046*
C90.9000 (3)0.49498 (12)0.22019 (19)0.0391 (5)
H91.04600.52360.22390.047*
C100.8099 (3)0.45159 (11)0.10867 (18)0.0332 (4)
H100.89640.44980.03670.040*
U11U22U33U12U13U23
Cl10.0519 (3)0.0482 (3)0.0248 (2)−0.0100 (2)0.0192 (2)−0.0056 (2)
Cl20.0424 (3)0.0384 (3)0.0344 (3)−0.0145 (2)0.0099 (2)−0.00277 (19)
N10.0314 (8)0.0280 (8)0.0213 (7)−0.0007 (7)0.0077 (6)−0.0002 (6)
N20.0290 (8)0.0250 (8)0.0217 (7)−0.0008 (6)0.0056 (6)0.0012 (6)
C10.0352 (10)0.0268 (9)0.0194 (8)0.0042 (8)0.0095 (7)0.0021 (7)
C20.0346 (10)0.0265 (9)0.0210 (8)−0.0003 (8)0.0042 (7)−0.0027 (7)
C30.0296 (9)0.0234 (9)0.0244 (8)−0.0008 (7)0.0043 (7)0.0021 (7)
C40.0278 (9)0.0240 (9)0.0200 (8)0.0047 (7)0.0046 (7)0.0033 (6)
C50.0307 (9)0.0226 (9)0.0209 (8)0.0032 (7)0.0035 (7)0.0011 (6)
C60.0375 (10)0.0264 (9)0.0253 (9)0.0013 (8)0.0080 (7)0.0005 (7)
C70.0500 (12)0.0366 (11)0.0206 (9)0.0080 (9)0.0078 (8)−0.0013 (7)
C80.0442 (12)0.0383 (11)0.0276 (9)0.0086 (10)−0.0063 (8)−0.0079 (8)
C90.0323 (10)0.0415 (12)0.0406 (11)−0.0028 (9)−0.0019 (8)−0.0081 (9)
C100.0316 (10)0.0375 (11)0.0311 (9)−0.0021 (8)0.0073 (8)−0.0037 (8)
Cl1—C11.7362 (17)C5—C61.393 (2)
Cl2—C31.7333 (17)C6—C71.384 (2)
N1—C11.319 (2)C6—H60.9500
N1—C41.342 (2)C7—C81.379 (3)
N2—C31.320 (2)C7—H70.9500
N2—C41.342 (2)C8—C91.378 (3)
C1—C21.375 (2)C8—H80.9500
C2—C31.379 (2)C9—C101.385 (2)
C2—H20.9500C9—H90.9500
C4—C51.480 (2)C10—H100.9500
C5—C101.389 (2)
C1—N1—C4115.52 (14)C6—C5—C4120.90 (15)
C3—N2—C4115.88 (14)C7—C6—C5119.93 (17)
N1—C1—C2125.22 (15)C7—C6—H6120.0
N1—C1—Cl1116.28 (13)C5—C6—H6120.0
C2—C1—Cl1118.49 (13)C8—C7—C6120.49 (17)
C1—C2—C3113.49 (15)C8—C7—H7119.8
C1—C2—H2123.3C6—C7—H7119.8
C3—C2—H2123.3C9—C8—C7120.06 (17)
N2—C3—C2124.69 (16)C9—C8—H8120.0
N2—C3—Cl2116.58 (13)C7—C8—H8120.0
C2—C3—Cl2118.70 (13)C8—C9—C10119.83 (18)
N1—C4—N2125.13 (15)C8—C9—H9120.1
N1—C4—C5117.31 (15)C10—C9—H9120.1
N2—C4—C5117.55 (14)C9—C10—C5120.63 (17)
C10—C5—C6119.06 (16)C9—C10—H10119.7
C10—C5—C4120.04 (15)C5—C10—H10119.7
C4—N1—C1—C2−0.4 (2)N1—C4—C5—C10−8.8 (2)
C4—N1—C1—Cl1−179.46 (12)N2—C4—C5—C10170.39 (16)
N1—C1—C2—C3−1.8 (3)N1—C4—C5—C6170.99 (15)
Cl1—C1—C2—C3177.25 (12)N2—C4—C5—C6−9.9 (2)
C4—N2—C3—C2−2.3 (2)C10—C5—C6—C70.1 (3)
C4—N2—C3—Cl2175.70 (12)C4—C5—C6—C7−179.64 (15)
C1—C2—C3—N23.2 (3)C5—C6—C7—C80.5 (3)
C1—C2—C3—Cl2−174.72 (13)C6—C7—C8—C9−0.3 (3)
C1—N1—C4—N21.6 (2)C7—C8—C9—C10−0.6 (3)
C1—N1—C4—C5−179.38 (14)C8—C9—C10—C51.2 (3)
C3—N2—C4—N1−0.3 (2)C6—C5—C10—C9−1.0 (3)
C3—N2—C4—C5−179.36 (14)C4—C5—C10—C9178.79 (16)
D—H···AD—HH···AD···AD—H···A
C2—H2···N2i0.952.463.317 (2)151
Table 1

Hydrogen-bond geometry (, )

DHA DHHA D A DHA
C2H2N2i 0.952.463.317(2)151

Symmetry code: (i) .

  2 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.  Crystal structure refinement with SHELXL.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr C Struct Chem       Date:  2015-01-01       Impact factor: 1.172

  2 in total
  1 in total

1.  Thermodynamic Stability of Fenclorim and Clopyralid.

Authors:  Ana R R P Almeida; Bruno D A Pinheiro; Ana I M C Lobo Ferreira; Manuel J S Monte
Journal:  Molecules       Date:  2021-12-22       Impact factor: 4.411

  1 in total

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