Literature DB >> 21579254

(E)-N'-(2,3,4-Trimethoxy-benzyl-idene)isonicotinohydrazide.

H S Naveenkumar, Amirin Sadikun, Pazilah Ibrahim, Chin Sing Yeap, Hoong-Kun Fun.   

Abstract

In the title compound, C(16)H(17)N(3)O(4), the mol-ecule exists in an E configuration with respect to the C=N double bond. The mol-ecule is not planar, the dihedral angle between the pyridine and n class="Chemical">benzene rings being 71.67 (8)°. In the crystal structure, mol-ecules are linked into chains along the b axis by bifurcated N-H⋯O and C-H⋯O hydrogen bonds. These chains are linked into a three-dimensional network by C-H⋯O and C-H⋯π inter-actions.

Entities:  

Year:  2010        PMID: 21579254      PMCID: PMC2979288          DOI: 10.1107/S1600536810015266

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


Related literature

For applications of isoniazid derivatives, see: Janin (2007 ▶); Maccari et al. (2005 ▶); Slayden & Barry (2000 ▶); Kahwa et al. (1986 ▶). For preparation of the compound, see: Lourenco et al. (2008 ▶). For related structures, see: Naveenkumar et al. (2009 ▶, 2010a ▶,b ▶); Shi (2005 ▶). For the stability of the temperature controller used for the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C16H17N3O4 M = 315.33 Monoclinic, a = 14.246 (3) Å b = 9.397 (2) Å c = 12.098 (3) Å β = 109.245 (6)° V = 1529.1 (6) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 100 K 0.38 × 0.33 × 0.14 mm

Data collection

Bruker APEXII DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.963, T max = 0.986 14341 measured reflections 3482 independent reflections 2988 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.047 wR(F 2) = 0.159 S = 1.10 3482 reflections 215 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.57 e Å−3 Δρmin = −0.38 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: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810015266/tk2657sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810015266/tk2657Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C16H17N3O4F(000) = 664
Mr = 315.33Dx = 1.370 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 5847 reflections
a = 14.246 (3) Åθ = 2.8–33.0°
b = 9.397 (2) ŵ = 0.10 mm1
c = 12.098 (3) ÅT = 100 K
β = 109.245 (6)°Block, colourless
V = 1529.1 (6) Å30.38 × 0.33 × 0.14 mm
Z = 4
Bruker APEXII DUO CCD area-detector diffractometer3482 independent reflections
Radiation source: fine-focus sealed tube2988 reflections with I > 2σ(I)
graphiteRint = 0.030
φ and ω scansθmax = 27.5°, θmin = 2.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −17→18
Tmin = 0.963, Tmax = 0.986k = −11→12
14341 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)] = 0.047Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.159H atoms treated by a mixture of independent and constrained refinement
S = 1.10w = 1/[σ2(Fo2) + (0.0903P)2 + 0.7464P] where P = (Fo2 + 2Fc2)/3
3482 reflections(Δ/σ)max < 0.001
215 parametersΔρmax = 0.56 e Å3
0 restraintsΔρmin = −0.38 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K.
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
O10.01090 (9)0.86823 (12)−0.28320 (11)0.0286 (3)
O20.36424 (9)0.41851 (12)−0.00731 (10)0.0232 (3)
O30.47223 (8)0.40332 (13)0.23303 (10)0.0235 (3)
O40.41436 (9)0.55428 (13)0.38640 (10)0.0245 (3)
N1−0.18863 (12)0.63126 (17)−0.66119 (13)0.0302 (4)
N20.05989 (10)0.63755 (14)−0.24901 (12)0.0207 (3)
N30.11895 (10)0.66421 (14)−0.13400 (11)0.0208 (3)
C1−0.08316 (12)0.79807 (18)−0.52380 (15)0.0238 (3)
H1A−0.05570.8888−0.50980.029*
C2−0.14580 (13)0.76010 (19)−0.63502 (15)0.0277 (4)
H2A−0.15870.8275−0.69440.033*
C3−0.16847 (13)0.53782 (19)−0.57329 (15)0.0278 (4)
H3A−0.19830.4487−0.58940.033*
C4−0.10626 (12)0.56370 (17)−0.45947 (15)0.0231 (3)
H4A−0.09420.4937−0.40210.028*
C5−0.06239 (11)0.69824 (17)−0.43404 (14)0.0204 (3)
C60.00512 (11)0.74314 (16)−0.31422 (14)0.0203 (3)
C70.18304 (11)0.56473 (17)−0.09093 (13)0.0200 (3)
H7A0.19100.4914−0.13870.024*
C80.24315 (11)0.56734 (16)0.03316 (14)0.0198 (3)
C90.33100 (11)0.48599 (16)0.07346 (13)0.0184 (3)
C100.38660 (11)0.48299 (16)0.19251 (13)0.0188 (3)
C110.35435 (12)0.56152 (17)0.27246 (14)0.0205 (3)
C120.26610 (12)0.63962 (17)0.23309 (15)0.0233 (3)
H12A0.24380.68950.28600.028*
C130.21207 (12)0.64218 (17)0.11454 (14)0.0229 (3)
H13A0.15370.69510.08860.027*
C140.35843 (15)0.26623 (19)−0.00823 (17)0.0325 (4)
H14A0.37680.2297−0.07230.049*
H14B0.29170.2376−0.01710.049*
H14C0.40290.22940.06410.049*
C150.55771 (13)0.4749 (2)0.22131 (17)0.0324 (4)
H15A0.61520.41520.25160.049*
H15B0.56820.56260.26440.049*
H15C0.54680.49450.14010.049*
C160.38727 (14)0.6398 (2)0.46951 (15)0.0308 (4)
H16A0.43430.62480.54630.046*
H16B0.32210.61320.46900.046*
H16C0.38730.73840.44880.046*
H1N20.0529 (18)0.544 (3)−0.270 (2)0.038 (6)*
U11U22U33U12U13U23
O10.0297 (6)0.0180 (6)0.0300 (6)0.0029 (5)−0.0011 (5)−0.0029 (5)
O20.0270 (6)0.0225 (6)0.0204 (6)0.0008 (4)0.0083 (5)−0.0008 (4)
O30.0192 (6)0.0264 (6)0.0232 (6)0.0059 (4)0.0047 (4)0.0030 (4)
O40.0264 (6)0.0278 (6)0.0176 (6)0.0044 (5)0.0048 (5)−0.0011 (4)
N10.0324 (8)0.0321 (8)0.0239 (7)0.0010 (6)0.0062 (6)−0.0048 (6)
N20.0224 (7)0.0167 (6)0.0202 (6)0.0005 (5)0.0032 (5)−0.0022 (5)
N30.0217 (6)0.0189 (6)0.0200 (6)−0.0027 (5)0.0045 (5)−0.0024 (5)
C10.0234 (7)0.0205 (8)0.0288 (8)0.0018 (6)0.0104 (6)0.0013 (6)
C20.0306 (9)0.0289 (9)0.0244 (8)0.0040 (7)0.0101 (7)0.0026 (6)
C30.0276 (8)0.0244 (8)0.0285 (8)−0.0007 (7)0.0055 (7)−0.0062 (7)
C40.0214 (7)0.0200 (8)0.0272 (8)0.0014 (6)0.0071 (6)0.0000 (6)
C50.0181 (7)0.0197 (7)0.0243 (8)0.0031 (6)0.0080 (6)−0.0013 (6)
C60.0178 (7)0.0172 (7)0.0257 (8)0.0011 (6)0.0069 (6)−0.0006 (6)
C70.0201 (7)0.0191 (7)0.0201 (7)−0.0028 (6)0.0054 (6)−0.0004 (5)
C80.0192 (7)0.0175 (7)0.0211 (7)−0.0023 (6)0.0044 (6)0.0028 (5)
C90.0198 (7)0.0160 (7)0.0197 (7)−0.0020 (5)0.0069 (6)0.0004 (5)
C100.0175 (7)0.0170 (7)0.0212 (7)0.0014 (5)0.0054 (6)0.0021 (5)
C110.0222 (7)0.0195 (7)0.0192 (7)−0.0006 (6)0.0059 (6)0.0013 (6)
C120.0242 (8)0.0227 (8)0.0236 (8)0.0035 (6)0.0088 (6)−0.0016 (6)
C130.0216 (7)0.0199 (8)0.0259 (8)0.0026 (6)0.0061 (6)0.0019 (6)
C140.0394 (10)0.0229 (9)0.0378 (10)0.0001 (7)0.0165 (8)−0.0068 (7)
C150.0205 (8)0.0433 (11)0.0336 (9)0.0019 (7)0.0092 (7)0.0000 (8)
C160.0330 (9)0.0381 (10)0.0211 (8)0.0055 (8)0.0086 (7)−0.0035 (7)
O1—C61.228 (2)C5—C61.512 (2)
O2—C91.3733 (19)C7—C81.463 (2)
O2—C141.433 (2)C7—H7A0.9300
O3—C101.3765 (18)C8—C131.395 (2)
O3—C151.438 (2)C8—C91.409 (2)
O4—C111.3634 (19)C9—C101.397 (2)
O4—C161.436 (2)C10—C111.409 (2)
N1—C31.335 (2)C11—C121.397 (2)
N1—C21.346 (2)C12—C131.387 (2)
N2—C61.345 (2)C12—H12A0.9300
N2—N31.3910 (18)C13—H13A0.9300
N2—H1N20.91 (3)C14—H14A0.9600
N3—C71.290 (2)C14—H14B0.9600
C1—C51.391 (2)C14—H14C0.9600
C1—C21.394 (2)C15—H15A0.9600
C1—H1A0.9300C15—H15B0.9600
C2—H2A0.9300C15—H15C0.9600
C3—C41.391 (2)C16—H16A0.9600
C3—H3A0.9300C16—H16B0.9600
C4—C51.399 (2)C16—H16C0.9600
C4—H4A0.9300
C9—O2—C14115.72 (13)O2—C9—C8118.64 (14)
C10—O3—C15112.99 (13)C10—C9—C8120.32 (14)
C11—O4—C16117.16 (13)O3—C10—C9120.87 (14)
C3—N1—C2116.26 (15)O3—C10—C11119.46 (13)
C6—N2—N3119.77 (13)C9—C10—C11119.68 (14)
C6—N2—H1N2124.0 (15)O4—C11—C12124.39 (15)
N3—N2—H1N2115.3 (15)O4—C11—C10115.49 (14)
C7—N3—N2112.81 (13)C12—C11—C10120.11 (15)
C5—C1—C2119.00 (16)C13—C12—C11119.48 (15)
C5—C1—H1A120.5C13—C12—H12A120.3
C2—C1—H1A120.5C11—C12—H12A120.3
N1—C2—C1123.62 (16)C12—C13—C8121.61 (15)
N1—C2—H2A118.2C12—C13—H13A119.2
C1—C2—H2A118.2C8—C13—H13A119.2
N1—C3—C4124.95 (16)O2—C14—H14A109.5
N1—C3—H3A117.5O2—C14—H14B109.5
C4—C3—H3A117.5H14A—C14—H14B109.5
C3—C4—C5117.92 (16)O2—C14—H14C109.5
C3—C4—H4A121.0H14A—C14—H14C109.5
C5—C4—H4A121.0H14B—C14—H14C109.5
C1—C5—C4118.23 (15)O3—C15—H15A109.5
C1—C5—C6117.70 (15)O3—C15—H15B109.5
C4—C5—C6124.06 (15)H15A—C15—H15B109.5
O1—C6—N2123.99 (15)O3—C15—H15C109.5
O1—C6—C5121.16 (14)H15A—C15—H15C109.5
N2—C6—C5114.79 (14)H15B—C15—H15C109.5
N3—C7—C8119.94 (14)O4—C16—H16A109.5
N3—C7—H7A120.0O4—C16—H16B109.5
C8—C7—H7A120.0H16A—C16—H16B109.5
C13—C8—C9118.77 (14)O4—C16—H16C109.5
C13—C8—C7121.20 (14)H16A—C16—H16C109.5
C9—C8—C7119.90 (14)H16B—C16—H16C109.5
O2—C9—C10120.87 (13)
C6—N2—N3—C7−165.58 (14)C7—C8—C9—O27.4 (2)
C3—N1—C2—C10.3 (3)C13—C8—C9—C10−1.2 (2)
C5—C1—C2—N10.5 (3)C7—C8—C9—C10−177.24 (14)
C2—N1—C3—C4−1.0 (3)C15—O3—C10—C982.69 (18)
N1—C3—C4—C51.0 (3)C15—O3—C10—C11−97.83 (17)
C2—C1—C5—C4−0.5 (2)O2—C9—C10—O3−5.1 (2)
C2—C1—C5—C6−179.50 (14)C8—C9—C10—O3179.63 (14)
C3—C4—C5—C1−0.2 (2)O2—C9—C10—C11175.45 (14)
C3—C4—C5—C6178.75 (15)C8—C9—C10—C110.2 (2)
N3—N2—C6—O17.8 (2)C16—O4—C11—C12−3.8 (2)
N3—N2—C6—C5−175.09 (13)C16—O4—C11—C10176.28 (14)
C1—C5—C6—O127.6 (2)O3—C10—C11—O41.7 (2)
C4—C5—C6—O1−151.38 (17)C9—C10—C11—O4−178.79 (13)
C1—C5—C6—N2−149.60 (15)O3—C10—C11—C12−178.17 (14)
C4—C5—C6—N231.5 (2)C9—C10—C11—C121.3 (2)
N2—N3—C7—C8−172.80 (13)O4—C11—C12—C13178.42 (15)
N3—C7—C8—C1322.4 (2)C10—C11—C12—C13−1.7 (2)
N3—C7—C8—C9−161.70 (15)C11—C12—C13—C80.6 (2)
C14—O2—C9—C1073.23 (19)C9—C8—C13—C120.8 (2)
C14—O2—C9—C8−111.40 (16)C7—C8—C13—C12176.81 (15)
C13—C8—C9—O2−176.62 (14)
Cg1 is centroid of the C1/C2/N1/C3/C4/C5 ring.
D—H···AD—HH···AD···AD—H···A
N2—H1N2···O1i0.91 (3)2.09 (3)2.7987 (19)134 (2)
C4—H4A···O1i0.932.463.348 (2)159
C14—H14C···O30.962.553.113 (2)118
C15—H15C···O2ii0.962.493.292 (2)141
C16—H16A···O3iii0.962.573.518 (2)167
C14—H14B···Cg1i0.962.813.719 (3)159
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroid of the C1/C2/N1/C3/C4/C5 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H1N2⋯O1i0.91 (3)2.09 (3)2.7987 (19)134 (2)
C4—H4A⋯O1i0.932.463.348 (2)159
C14—H14C⋯O30.962.553.113 (2)118
C15—H15C⋯O2ii0.962.493.292 (2)141
C16—H16A⋯O3iii0.962.573.518 (2)167
C14—H14BCg1i0.962.813.719 (3)159

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

  9 in total

Review 1.  The genetics and biochemistry of isoniazid resistance in mycobacterium tuberculosis.

Authors:  R A Slayden; C E Barry
Journal:  Microbes Infect       Date:  2000-05       Impact factor: 2.700

2.  In vitro advanced antimycobacterial screening of isoniazid-related hydrazones, hydrazides and cyanoboranes: part 14.

Authors:  Rosanna Maccari; Rosaria Ottanà; Maria Gabriella Vigorita
Journal:  Bioorg Med Chem Lett       Date:  2005-05-16       Impact factor: 2.823

3.  A short history of SHELX.

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

4.  Synthesis and anti-mycobacterial activity of (E)-N'-(monosubstituted-benzylidene)isonicotinohydrazide derivatives.

Authors:  Maria Cristina da Silva Lourenço; Marcelle de Lima Ferreira; Marcus Vinícius Nora de Souza; Mônica Amado Peralta; Thatyana Rocha Alves Vasconcelos; Maria das Graças M O Henriques
Journal:  Eur J Med Chem       Date:  2007-09-02       Impact factor: 6.514

Review 5.  Antituberculosis drugs: ten years of research.

Authors:  Yves L Janin
Journal:  Bioorg Med Chem       Date:  2007-01-19       Impact factor: 3.641

6.  (E)-N'-(3-Benz-yloxy-4-methoxy-benzyl-idene)isonicotinohydrazide.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Wan-Sin Loh; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-09-26

7.  (E)-N'-[(E)-3-(4-Hydr-oxy-3-methoxy-phen-yl)allyl-idene]isonicotinohydrazide.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Ching Kheng Quah; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-01-09

8.  (E)-N'-(2,4,5-Trifluorobenzyl-idene)isonicotinohydrazide monohydrate.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Chin Sing Yeap; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-02-10

9.  Structure validation in chemical crystallography.

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

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