Literature DB >> 25309266

Crystal structure of triclopyr.

Seonghwa Cho1, Jineun Kim1, Youngeun Jeon1, Tae Ho Kim1.   

Abstract

In the title compound {systematic name: 2-[(3,5,6-tri-chloro-pyridin-2-yl)-oxy]acetic acid}, the herbicide triclopyr, C7H4Cl3NO3, the asymmetric unit comprises two independent mol-ecules in which the dihedral angles between the mean plane of the carb-oxy-lic acid group and the pyridyl ring plane are 79.3 (6) and 83.8 (5)°. In the crystal, pairs of inter-molecular O-H⋯O hydrogen bonds form dimers through an R 2 (2)(8) ring motif and are extended into chains along [100] by weak π-π inter-actions [ring centroid separations = 3.799 (4) and 3.810 (4) Å]. In addition, short inter-molecular Cl⋯Cl contacts [3.458 (2) Å] connect the chains, yielding a two-dimensional architecture extending parallel to (020). The crystal studied was found to be non-merohedrally twinned with the minor component being 0.175 (4).

Entities:  

Keywords:  crystal structure; herbicide; hydrogen-bonded dimers; non-merohedral twinning; triclopyr; π–π inter­actions

Year:  2014        PMID: 25309266      PMCID: PMC4186132          DOI: 10.1107/S160053681401681X

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


Related literature

For information on the toxicity and herbicidal properties of the title compound, see: McMullin et al. (2011 ▶); Carney et al. (2007 ▶). For a related crystal structure, see: Smith et al. (1976 ▶). Non-merohedral twinning in the crystal was identified usinTwinRotMat within PLATON (Spek, 2009 ▶).

Experimental

Crystal data

C7H4Cl3NO3 M = 256.46 Monoclinic, a = 7.5771 (9) Å b = 25.409 (3) Å c = 10.1668 (12) Å β = 106.261 (8)° V = 1879.1 (4) Å3 Z = 8 Mo Kα radiation μ = 0.95 mm−1 T = 173 K 0.50 × 0.09 × 0.06 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.648, T max = 0.945 3699 measured reflections 3699 independent reflections 3080 reflections with I > 2σ(I) R int = 0.000

Refinement

R[F 2 > 2σ(F 2)] = 0.044 wR(F 2) = 0.096 S = 1.12 3699 reflections 256 parameters H-atom parameters constrained Δρmax = 0.32 e Å−3 Δρmin = −0.28 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/S160053681401681X/zs2309sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681401681X/zs2309Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S160053681401681X/zs2309Isup3.cml Click here for additional data file. . DOI: 10.1107/S160053681401681X/zs2309fig1.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/S160053681401681X/zs2309fig2.tif Crystal packing viewed along the a axis. The inter­molecular O—H⋯O hydrogen bonds, weak π–π inter­actions, and short Cl⋯Cl contacts are shown as dashed lines. CCDC reference: 1015180 Additional supporting information: crystallographic information; 3D view; checkCIF report
C7H4Cl3NO3F(000) = 1024
Mr = 256.46Dx = 1.813 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3761 reflections
a = 7.5771 (9) Åθ = 2.2–25.5°
b = 25.409 (3) ŵ = 0.95 mm1
c = 10.1668 (12) ÅT = 173 K
β = 106.261 (8)°Needle, colourless
V = 1879.1 (4) Å30.50 × 0.09 × 0.06 mm
Z = 8
Bruker APEXII CCD diffractometer3699 independent reflections
Radiation source: fine-focus sealed tube3080 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.000
φ and ω scansθmax = 26.0°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −9→8
Tmin = 0.648, Tmax = 0.945k = −31→31
3699 measured reflectionsl = −5→12
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.044Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.096H-atom parameters constrained
S = 1.12w = 1/[σ2(Fo2) + (0.0219P)2 + 2.0682P] where P = (Fo2 + 2Fc2)/3
3699 reflections(Δ/σ)max = 0.001
256 parametersΔρmax = 0.32 e Å3
0 restraintsΔρmin = −0.28 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
Cl10.66278 (13)0.53311 (3)0.94222 (8)0.0336 (2)
Cl20.86627 (14)0.62564 (3)1.13208 (9)0.0397 (2)
Cl30.67175 (14)0.75251 (3)0.69082 (10)0.0408 (2)
Cl41.00995 (14)0.31553 (3)0.50221 (9)0.0380 (2)
Cl50.79593 (15)0.23214 (3)0.28102 (10)0.0432 (3)
Cl60.66657 (14)0.38875 (3)−0.09150 (8)0.0403 (2)
O10.4722 (3)0.65825 (8)0.5624 (2)0.0317 (5)
O20.6886 (3)0.58941 (10)0.4787 (3)0.0386 (6)
O30.4491 (3)0.53970 (9)0.3695 (3)0.0382 (6)
H3O0.52900.52310.34340.057*
O40.9075 (3)0.44645 (8)0.1341 (2)0.0315 (5)
O50.9552 (3)0.54570 (9)0.3905 (2)0.0316 (5)
H5O0.87840.55990.42500.047*
O60.7219 (3)0.49064 (9)0.2971 (3)0.0361 (6)
N10.5733 (4)0.60258 (10)0.7479 (3)0.0248 (6)
N20.9432 (4)0.38215 (10)0.3000 (3)0.0258 (6)
C10.6641 (4)0.59584 (11)0.8776 (3)0.0242 (7)
C20.7565 (5)0.63593 (12)0.9613 (3)0.0267 (7)
C30.7598 (5)0.68502 (11)0.9024 (3)0.0278 (7)
H30.82540.71330.95520.033*
C40.6673 (5)0.69213 (11)0.7674 (3)0.0254 (7)
C50.5714 (4)0.64974 (12)0.6938 (3)0.0241 (7)
C60.3859 (5)0.61313 (13)0.4863 (3)0.0331 (8)
H6A0.29050.62470.40320.040*
H6B0.32510.59200.54300.040*
C70.5265 (5)0.57983 (12)0.4455 (3)0.0283 (7)
C80.9176 (5)0.33276 (12)0.3324 (3)0.0266 (7)
C90.8219 (5)0.29661 (12)0.2378 (3)0.0276 (7)
C100.7423 (5)0.31367 (12)0.1045 (3)0.0279 (7)
H100.67170.29010.03760.033*
C110.7668 (5)0.36496 (12)0.0706 (3)0.0266 (7)
C120.8738 (4)0.39780 (11)0.1722 (3)0.0255 (7)
C131.0054 (5)0.48192 (12)0.2385 (3)0.0301 (8)
H13A1.06240.51000.19670.036*
H13B1.10480.46270.30530.036*
C140.8768 (5)0.50619 (12)0.3117 (3)0.0269 (7)
U11U22U33U12U13U23
Cl10.0447 (5)0.0215 (4)0.0343 (4)−0.0055 (4)0.0106 (4)0.0039 (3)
Cl20.0511 (6)0.0334 (4)0.0276 (4)−0.0038 (4)−0.0006 (4)0.0000 (3)
Cl30.0532 (6)0.0246 (4)0.0453 (5)−0.0031 (4)0.0153 (5)0.0085 (4)
Cl40.0483 (6)0.0327 (4)0.0293 (4)0.0081 (4)0.0048 (4)0.0055 (3)
Cl50.0617 (7)0.0248 (4)0.0466 (5)−0.0052 (4)0.0210 (5)0.0019 (4)
Cl60.0517 (6)0.0405 (5)0.0244 (4)0.0102 (4)0.0035 (4)0.0000 (3)
O10.0372 (14)0.0290 (12)0.0261 (12)0.0025 (11)0.0044 (11)−0.0002 (9)
O20.0295 (15)0.0436 (14)0.0423 (15)−0.0027 (12)0.0092 (12)−0.0138 (11)
O30.0304 (14)0.0387 (14)0.0430 (15)−0.0022 (12)0.0064 (12)−0.0143 (11)
O40.0415 (15)0.0223 (11)0.0290 (12)0.0005 (10)0.0072 (11)0.0008 (9)
O50.0290 (13)0.0293 (12)0.0355 (13)−0.0032 (11)0.0074 (11)−0.0063 (10)
O60.0315 (15)0.0296 (12)0.0471 (15)−0.0033 (11)0.0110 (12)−0.0094 (11)
N10.0244 (15)0.0246 (13)0.0270 (14)−0.0031 (12)0.0098 (12)−0.0019 (11)
N20.0274 (16)0.0230 (13)0.0253 (14)0.0030 (12)0.0044 (12)−0.0023 (11)
C10.0277 (18)0.0185 (14)0.0297 (17)−0.0006 (13)0.0136 (15)0.0012 (12)
C20.0278 (19)0.0281 (16)0.0238 (16)−0.0001 (14)0.0066 (14)−0.0012 (13)
C30.033 (2)0.0186 (15)0.0332 (18)−0.0043 (14)0.0117 (16)−0.0043 (13)
C40.0314 (19)0.0181 (14)0.0301 (17)0.0001 (14)0.0141 (15)0.0033 (12)
C50.0248 (18)0.0252 (16)0.0244 (16)0.0021 (13)0.0105 (14)−0.0001 (12)
C60.031 (2)0.0383 (19)0.0274 (18)0.0025 (16)0.0038 (16)−0.0071 (14)
C70.034 (2)0.0296 (17)0.0194 (16)0.0003 (15)0.0038 (15)0.0009 (13)
C80.0269 (19)0.0256 (16)0.0279 (17)0.0085 (14)0.0089 (15)0.0038 (13)
C90.0301 (19)0.0227 (15)0.0331 (18)0.0020 (14)0.0138 (16)0.0015 (13)
C100.0268 (19)0.0272 (16)0.0305 (18)−0.0004 (14)0.0096 (15)−0.0083 (13)
C110.0265 (18)0.0297 (16)0.0235 (16)0.0066 (15)0.0069 (15)−0.0018 (13)
C120.0252 (18)0.0210 (15)0.0322 (18)0.0063 (14)0.0113 (15)−0.0021 (13)
C130.032 (2)0.0223 (15)0.0353 (19)−0.0010 (14)0.0080 (16)−0.0012 (14)
C140.031 (2)0.0197 (15)0.0267 (17)0.0019 (15)0.0028 (15)0.0028 (13)
Cl1—C11.725 (3)N2—C121.319 (4)
Cl2—C21.722 (3)N2—C81.325 (4)
Cl3—C41.725 (3)C1—C21.385 (4)
Cl4—C81.728 (3)C2—C31.387 (4)
Cl5—C91.721 (3)C3—C41.367 (4)
Cl6—C111.720 (3)C3—H30.9500
O1—C51.354 (4)C4—C51.394 (4)
O1—C61.434 (4)C6—C71.507 (5)
O2—C71.204 (4)C6—H6A0.9900
O3—C71.314 (4)C6—H6B0.9900
O3—H3O0.8400C8—C91.379 (4)
O4—C121.341 (4)C9—C101.389 (4)
O4—C131.431 (4)C10—C111.374 (4)
O5—C141.318 (4)C10—H100.9500
O5—H5O0.8400C11—C121.397 (4)
O6—C141.208 (4)C13—C141.513 (5)
N1—C11.317 (4)C13—H13A0.9900
N1—C51.317 (4)C13—H13B0.9900
C5—O1—C6116.6 (2)O2—C7—O3125.0 (3)
C7—O3—H3O109.5O2—C7—C6123.6 (3)
C12—O4—C13117.9 (2)O3—C7—C6111.3 (3)
C14—O5—H5O109.5N2—C8—C9122.8 (3)
C1—N1—C5118.6 (3)N2—C8—Cl4116.2 (2)
C12—N2—C8119.0 (3)C9—C8—Cl4120.9 (2)
N1—C1—C2123.5 (3)C8—C9—C10118.1 (3)
N1—C1—Cl1116.4 (2)C8—C9—Cl5122.1 (3)
C2—C1—Cl1120.1 (2)C10—C9—Cl5119.7 (2)
C1—C2—C3117.6 (3)C11—C10—C9119.3 (3)
C1—C2—Cl2121.7 (2)C11—C10—H10120.4
C3—C2—Cl2120.7 (2)C9—C10—H10120.4
C4—C3—C2119.1 (3)C10—C11—C12118.1 (3)
C4—C3—H3120.5C10—C11—Cl6121.3 (3)
C2—C3—H3120.5C12—C11—Cl6120.5 (2)
C3—C4—C5118.7 (3)N2—C12—O4120.4 (3)
C3—C4—Cl3120.1 (2)N2—C12—C11122.5 (3)
C5—C4—Cl3121.2 (2)O4—C12—C11117.0 (3)
N1—C5—O1119.7 (3)O4—C13—C14110.5 (3)
N1—C5—C4122.4 (3)O4—C13—H13A109.6
O1—C5—C4117.9 (3)C14—C13—H13A109.6
O1—C6—C7110.3 (3)O4—C13—H13B109.6
O1—C6—H6A109.6C14—C13—H13B109.6
C7—C6—H6A109.6H13A—C13—H13B108.1
O1—C6—H6B109.6O6—C14—O5125.5 (3)
C7—C6—H6B109.6O6—C14—C13122.9 (3)
H6A—C6—H6B108.1O5—C14—C13111.5 (3)
C5—N1—C1—C20.8 (5)C12—N2—C8—C90.3 (5)
C5—N1—C1—Cl1−179.5 (2)C12—N2—C8—Cl4−179.1 (2)
N1—C1—C2—C3−3.1 (5)N2—C8—C9—C10−3.0 (5)
Cl1—C1—C2—C3177.2 (2)Cl4—C8—C9—C10176.4 (2)
N1—C1—C2—Cl2177.6 (3)N2—C8—C9—Cl5178.1 (3)
Cl1—C1—C2—Cl2−2.1 (4)Cl4—C8—C9—Cl5−2.5 (4)
C1—C2—C3—C42.3 (5)C8—C9—C10—C112.3 (5)
Cl2—C2—C3—C4−178.4 (3)Cl5—C9—C10—C11−178.8 (3)
C2—C3—C4—C50.5 (5)C9—C10—C11—C120.8 (5)
C2—C3—C4—Cl3−179.1 (3)C9—C10—C11—Cl6−178.3 (2)
C1—N1—C5—O1−177.0 (3)C8—N2—C12—O4−175.5 (3)
C1—N1—C5—C42.3 (5)C8—N2—C12—C113.1 (5)
C6—O1—C5—N1−4.9 (4)C13—O4—C12—N2−5.8 (4)
C6—O1—C5—C4175.7 (3)C13—O4—C12—C11175.5 (3)
C3—C4—C5—N1−3.0 (5)C10—C11—C12—N2−3.6 (5)
Cl3—C4—C5—N1176.6 (2)Cl6—C11—C12—N2175.5 (2)
C3—C4—C5—O1176.4 (3)C10—C11—C12—O4175.0 (3)
Cl3—C4—C5—O1−4.1 (4)Cl6—C11—C12—O4−5.9 (4)
C5—O1—C6—C7−75.3 (3)C12—O4—C13—C14−80.9 (3)
O1—C6—C7—O23.1 (5)O4—C13—C14—O611.0 (4)
O1—C6—C7—O3−176.7 (3)O4—C13—C14—O5−168.6 (2)
D—H···AD—HH···AD···AD—H···A
O3—H3O···O60.841.852.688 (3)174
O5—H5O···O20.841.842.671 (3)172
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O3—H3O⋯O60.841.852.688 (3)174
O5—H5O⋯O20.841.842.671 (3)172
  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.  Developmental toxicity evaluation of triclopyr butoxyethyl ester and triclopyr triethylamine salt in the CD rat.

Authors:  E W Carney; R Billington; S M Barlow
Journal:  Reprod Toxicol       Date:  2006-11-28       Impact factor: 3.143

3.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  3 in total
  1 in total

1.  Crystal structure of fluroxypyr.

Authors:  Hyunjin Park; Myong Yong Choi; Eunjin Kwon; Tae Ho Kim
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2016-11-25
  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.