Literature DB >> 23468806

1-Benzyl-1H-benzotriazole 3-oxide monohydrate.

P Selvarathy Grace1, Samuel Robinson Jebas, B Ravindran Durai Nayagam, Dieter Schollmeyer.   

Abstract

In the title hydrate, C13H11N3O·H2O, the benzotriazole ring system is planar (r.m.s. deviation = 0.007 Å) and is almost orthogonal to the phenyl ring to which it is linked by a methyl-ene group, forming a dihedral angle of 81.87 (15)°. In the crystal, mol-ecules are linked into chains along [001] by O-H⋯O hydrogen bonds. The chains are consolidated into a three-dimensional architecture by C-H⋯O, C-H⋯π and π-π [centroid-centroid distance between the five- and six-membered rings of the benzotriazole ring system = 3.595 (3) Å] inter-actions.

Entities:  

Year:  2012        PMID: 23468806      PMCID: PMC3588841          DOI: 10.1107/S1600536812044868

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


Related literature

For the biological activity of benzotriazole derivatives, see: Kopańska et al. (2005 ▶); Sarala et al. (2007 ▶). For their applications, see: Kopec et al. (2008 ▶); Krawczyk & Gdaniec (2005 ▶); Smith et al. (2001 ▶); Sha et al. (1996 ▶). For a related structure, see: Selvarathy Grace et al. (2012 ▶).

Experimental

Crystal data

C13H11N3O·H2O M = 243.26 Orthorhombic, a = 12.556 (5) Å b = 20.881 (8) Å c = 4.6651 (18) Å V = 1223.1 (8) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 173 K 0.40 × 0.05 × 0.04 mm

Data collection

Bruker SMART APEXII diffractometer 15911 measured reflections 1677 independent reflections 1118 reflections with I > 2σ(I) R int = 0.132

Refinement

R[F 2 > 2σ(F 2)] = 0.052 wR(F 2) = 0.140 S = 0.98 1677 reflections 164 parameters 1 restraint H-atom parameters constrained Δρmax = 0.19 e Å−3 Δρmin = −0.24 e Å−3 Data collection: APEX2 (Bruker, 2008 ▶); cell refinement: SAINT (Bruker, 2008 ▶); 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: PLATON (Spek, 2009 ▶). Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812044868/tk5165sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812044868/tk5165Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812044868/tk5165Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H11N3O·H2OF(000) = 512
Mr = 243.26Dx = 1.321 Mg m3
Orthorhombic, Pna21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2c -2nCell parameters from 1403 reflections
a = 12.556 (5) Åθ = 2.5–20.2°
b = 20.881 (8) ŵ = 0.09 mm1
c = 4.6651 (18) ÅT = 173 K
V = 1223.1 (8) Å3Needle, colourless
Z = 40.40 × 0.05 × 0.04 mm
Bruker SMART APEXII diffractometer1118 reflections with I > 2σ(I)
Radiation source: sealed tubeRint = 0.132
Graphite monochromatorθmax = 28.2°, θmin = 1.9°
CCD scanh = −16→16
15911 measured reflectionsk = −27→27
1677 independent reflectionsl = −6→6
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.052H-atom parameters constrained
wR(F2) = 0.140w = 1/[σ2(Fo2) + (0.0825P)2] where P = (Fo2 + 2Fc2)/3
S = 0.98(Δ/σ)max < 0.001
1677 reflectionsΔρmax = 0.19 e Å3
164 parametersΔρmin = −0.24 e Å3
1 restraintExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.038 (6)
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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
N10.3160 (2)0.27237 (12)0.6604 (7)0.0335 (7)
N20.4106 (2)0.25008 (13)0.5616 (7)0.0372 (7)
N30.4253 (2)0.19473 (13)0.6976 (8)0.0389 (8)
C40.3429 (3)0.18041 (15)0.8807 (9)0.0343 (8)
C50.3241 (3)0.12821 (16)1.0631 (10)0.0455 (10)
H50.37200.09311.07690.055*
C60.2315 (3)0.13125 (18)1.2207 (10)0.0524 (11)
H60.21530.09741.34950.063*
C70.1594 (3)0.18339 (18)1.1969 (10)0.0464 (9)
H70.09620.18291.30890.056*
C80.1776 (3)0.23429 (16)1.0183 (8)0.0380 (9)
H80.12930.26921.00380.046*
C90.2720 (3)0.23174 (14)0.8583 (8)0.0301 (8)
C100.2800 (3)0.33671 (14)0.5809 (9)0.0344 (8)
H10A0.20190.33600.55140.041*
H10B0.31370.34920.39740.041*
C110.3069 (3)0.38601 (15)0.8068 (8)0.0310 (8)
C120.2259 (3)0.42481 (15)0.9188 (9)0.0364 (8)
H120.15450.41930.85580.044*
C130.2499 (3)0.47148 (15)1.1226 (9)0.0419 (9)
H130.19480.49791.19720.050*
C140.3532 (3)0.47944 (16)1.2161 (10)0.0423 (9)
H140.36930.51151.35390.051*
C150.4335 (3)0.44073 (16)1.1095 (9)0.0396 (9)
H150.50440.44581.17670.048*
C160.4107 (3)0.39448 (16)0.9047 (9)0.0377 (8)
H160.46630.36840.83080.045*
O170.51045 (19)0.16046 (12)0.6496 (9)0.0576 (10)
O1W0.4934 (2)0.03436 (11)0.4506 (7)0.0472 (7)
H1W0.49430.00980.58830.071*
H2W0.49860.07280.51030.071*
U11U22U33U12U13U23
N10.0399 (15)0.0262 (13)0.0344 (17)0.0007 (12)−0.0016 (14)0.0040 (13)
N20.0383 (15)0.0306 (13)0.0426 (18)0.0002 (13)0.0004 (15)−0.0061 (14)
N30.0389 (15)0.0276 (13)0.0503 (19)0.0033 (12)−0.0076 (16)−0.0087 (15)
C40.0400 (18)0.0240 (15)0.039 (2)−0.0013 (14)−0.0091 (18)−0.0034 (16)
C50.063 (2)0.0263 (16)0.048 (2)−0.0027 (17)−0.021 (2)0.0027 (18)
C60.080 (3)0.034 (2)0.043 (2)−0.017 (2)−0.018 (3)0.0126 (19)
C70.056 (2)0.043 (2)0.039 (2)−0.0120 (17)−0.003 (2)0.008 (2)
C80.044 (2)0.0316 (18)0.038 (2)−0.0022 (15)−0.0036 (18)0.0001 (16)
C90.0396 (18)0.0241 (14)0.0268 (19)−0.0015 (13)−0.0043 (16)0.0025 (14)
C100.045 (2)0.0259 (15)0.0321 (19)0.0012 (14)−0.0032 (17)0.0053 (15)
C110.0410 (18)0.0214 (14)0.0304 (18)−0.0046 (14)−0.0022 (16)0.0067 (14)
C120.0353 (17)0.0297 (15)0.044 (2)0.0020 (14)−0.0066 (18)0.0010 (17)
C130.0461 (19)0.0287 (16)0.051 (3)0.0061 (15)−0.005 (2)−0.0025 (18)
C140.056 (2)0.0299 (16)0.041 (2)−0.0108 (16)−0.001 (2)−0.0005 (18)
C150.0401 (19)0.0376 (17)0.041 (2)−0.0109 (16)−0.0017 (18)0.0010 (17)
C160.0376 (18)0.0372 (17)0.038 (2)0.0002 (15)0.0028 (17)0.0048 (17)
O170.0404 (14)0.0367 (13)0.096 (3)0.0084 (11)−0.0063 (17)−0.0224 (18)
O1W0.0745 (18)0.0287 (12)0.0382 (15)−0.0030 (12)−0.0035 (14)−0.0018 (12)
N1—N21.356 (4)C10—H10A0.9900
N1—C91.370 (4)C10—H10B0.9900
N1—C101.465 (4)C11—C161.393 (5)
N2—N31.331 (4)C11—C121.401 (5)
N3—O171.306 (4)C12—C131.394 (5)
N3—C41.374 (5)C12—H120.9500
C4—C91.398 (4)C13—C141.379 (5)
C4—C51.403 (5)C13—H130.9500
C5—C61.377 (6)C14—C151.385 (5)
C5—H50.9500C14—H140.9500
C6—C71.421 (6)C15—C161.389 (5)
C6—H60.9500C15—H150.9500
C7—C81.370 (5)C16—H160.9500
C7—H70.9500O1W—H1W0.8225
C8—C91.401 (5)O1W—H2W0.8519
C8—H80.9500
N2—N1—C9111.7 (3)N1—C10—C11112.3 (3)
N2—N1—C10119.9 (3)N1—C10—H10A109.1
C9—N1—C10127.8 (3)C11—C10—H10A109.1
N3—N2—N1104.9 (3)N1—C10—H10B109.1
O17—N3—N2120.5 (3)C11—C10—H10B109.1
O17—N3—C4127.1 (3)H10A—C10—H10B107.9
N2—N3—C4112.4 (3)C16—C11—C12118.9 (3)
N3—C4—C9105.4 (3)C16—C11—C10121.6 (3)
N3—C4—C5132.3 (3)C12—C11—C10119.5 (3)
C9—C4—C5122.3 (3)C13—C12—C11120.1 (3)
C6—C5—C4115.5 (3)C13—C12—H12119.9
C6—C5—H5122.3C11—C12—H12119.9
C4—C5—H5122.3C14—C13—C12120.2 (3)
C5—C6—C7122.1 (4)C14—C13—H13119.9
C5—C6—H6118.9C12—C13—H13119.9
C7—C6—H6118.9C13—C14—C15120.1 (4)
C8—C7—C6122.4 (4)C13—C14—H14120.0
C8—C7—H7118.8C15—C14—H14120.0
C6—C7—H7118.8C14—C15—C16120.2 (3)
C7—C8—C9115.9 (3)C14—C15—H15119.9
C7—C8—H8122.1C16—C15—H15119.9
C9—C8—H8122.1C15—C16—C11120.5 (3)
N1—C9—C4105.5 (3)C15—C16—H16119.8
N1—C9—C8132.6 (3)C11—C16—H16119.8
C4—C9—C8121.9 (3)H1W—O1W—H2W109.4
C9—N1—N2—N30.5 (4)C5—C4—C9—N1−179.4 (3)
C10—N1—N2—N3172.9 (3)N3—C4—C9—C8−179.3 (3)
N1—N2—N3—O17179.9 (3)C5—C4—C9—C80.3 (5)
N1—N2—N3—C40.2 (4)C7—C8—C9—N1179.4 (4)
O17—N3—C4—C9179.6 (3)C7—C8—C9—C4−0.1 (5)
N2—N3—C4—C9−0.8 (4)N2—N1—C10—C11−96.1 (4)
O17—N3—C4—C50.0 (7)C9—N1—C10—C1174.9 (4)
N2—N3—C4—C5179.6 (4)N1—C10—C11—C1654.8 (4)
N3—C4—C5—C6178.9 (4)N1—C10—C11—C12−126.0 (3)
C9—C4—C5—C6−0.6 (5)C16—C11—C12—C130.7 (5)
C4—C5—C6—C70.8 (6)C10—C11—C12—C13−178.6 (3)
C5—C6—C7—C8−0.7 (6)C11—C12—C13—C14−0.4 (6)
C6—C7—C8—C90.3 (6)C12—C13—C14—C15−0.5 (6)
N2—N1—C9—C4−1.0 (4)C13—C14—C15—C161.0 (6)
C10—N1—C9—C4−172.6 (3)C14—C15—C16—C11−0.7 (6)
N2—N1—C9—C8179.5 (4)C12—C11—C16—C15−0.1 (5)
C10—N1—C9—C87.8 (6)C10—C11—C16—C15179.1 (3)
N3—C4—C9—N11.0 (4)
D—H···AD—HH···AD···AD—H···A
O1W—H1W···O1Wi0.821.932.744 (3)169
O1W—H2W···O170.851.952.800 (3)180
C10—H10A···O17ii0.992.453.400 (5)161
C10—H10B···Cg3iii0.992.513.382 (4)147
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroid of the C11–C16 phenyl ring.

D—H⋯A D—HH⋯A DA D—H⋯A
O1W—H1W⋯O1W i 0.821.932.744 (3)169
O1W—H2W⋯O170.851.952.800 (3)180
C10—H10A⋯O17ii 0.992.453.400 (5)161
C10—H10BCg3iii 0.992.513.382 (4)147

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

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1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Synthesis and antimycobacterial activity of selected nitrobenzyloxylated benzotriazoles.

Authors:  Ewa Augustynowicz-Kopeć; Zofia Zwolska; Andrzej Orzeszko; Zygmunt Kazimierczuk
Journal:  Acta Pol Pharm       Date:  2008 Jul-Aug       Impact factor: 0.330

3.  1-Benzyl-1H-benzotriazole.

Authors:  P Selvarathy Grace; Samuel Robinson Jebas; B Ravindran Durai Nayagam; Dieter Schollmeyer
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-03-21

4.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
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