Literature DB >> 21579427

(E)-N'-(2-Benzyl-oxybenzyl-idene)isonicotinohydrazide methanol solvate monohydrate.

H S Naveenkumar, Amirin Sadikun, Pazilah Ibrahim, Madhukar Hemamalini, Hoong-Kun Fun.   

Abstract

The title compound, C(20)H(17)N(3)O(2)·CH(4)O·H(2)O, was synthesized by the condensation reaction of 2-benzyl-oxybenzaldehyde with isoniazid (isonicotinic acid hydrazide). The tricyclic compound displays a trans configuration with respect to the C=N double bond. The central benzene ring makes dihedral angles of 8.83 (7) and 70.39 (8)° with the pyridine ring and the terminal benzene ring, respectively. The dihedral angle between the pyridine ring and the terminal benzene ring is 73.11 (8)°. In the crystal structure, mol-ecules are connected by inter-molecular N-H⋯O, O-H⋯O, O-H⋯(N,N) and C-H⋯O hydrogen bonds, forming a two-dimensional network perpendicular to the a axis.

Entities:  

Year:  2010        PMID: 21579427      PMCID: PMC2979361          DOI: 10.1107/S1600536810016958

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 ▶). For the biological activity of Schiff bases, see: Kahwa et al. (1986 ▶). For related structures, see: Naveenkumar et al. (2010a ▶, 2010b ▶, 2010c ▶). For the synthesis of isoniazid derivatives, see: Lourenco et al. (2008 ▶). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C20H17N3O2·CH4O·H2O M = 381.42 Monoclinic, a = 17.763 (3) Å b = 12.3888 (18) Å c = 8.7450 (13) Å β = 98.672 (3)° V = 1902.4 (5) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.35 × 0.18 × 0.09 mm

Data collection

Bruker APEXII DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.968, T max = 0.992 24474 measured reflections 6515 independent reflections 4012 reflections with I > 2σ(I) R int = 0.069

Refinement

R[F 2 > 2σ(F 2)] = 0.059 wR(F 2) = 0.170 S = 1.00 6515 reflections 270 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.37 e Å−3 Δρmin = −0.35 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/S1600536810016958/sj2796sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810016958/sj2796Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H17N3O2·CH4O·H2OF(000) = 808
Mr = 381.42Dx = 1.332 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3013 reflections
a = 17.763 (3) Åθ = 2.3–30.0°
b = 12.3888 (18) ŵ = 0.09 mm1
c = 8.7450 (13) ÅT = 100 K
β = 98.672 (3)°Plate, colourless
V = 1902.4 (5) Å30.35 × 0.18 × 0.09 mm
Z = 4
Bruker APEXII DUO CCD area-detector diffractometer6515 independent reflections
Radiation source: fine-focus sealed tube4012 reflections with I > 2σ(I)
graphiteRint = 0.069
φ and ω scansθmax = 32.0°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −26→26
Tmin = 0.968, Tmax = 0.992k = −17→18
24474 measured reflectionsl = −13→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)] = 0.059Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.170H atoms treated by a mixture of independent and constrained refinement
S = 1.00w = 1/[σ2(Fo2) + (0.0887P)2] where P = (Fo2 + 2Fc2)/3
6515 reflections(Δ/σ)max < 0.001
270 parametersΔρmax = 0.37 e Å3
0 restraintsΔρmin = −0.35 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 s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
O10.12066 (6)0.05407 (9)0.36337 (14)0.0250 (3)
O20.36364 (6)0.37324 (8)0.80611 (13)0.0211 (2)
N1−0.05513 (8)0.28776 (12)0.00600 (16)0.0258 (3)
N20.17041 (7)0.21885 (11)0.43066 (15)0.0194 (3)
N30.22141 (7)0.17181 (10)0.54646 (15)0.0196 (3)
C10.04882 (9)0.31412 (13)0.2126 (2)0.0241 (3)
H1A0.07910.36220.27650.029*
C2−0.00980 (9)0.35168 (14)0.1031 (2)0.0270 (4)
H2A−0.01810.42580.09660.032*
C3−0.04163 (10)0.18181 (14)0.0186 (2)0.0284 (4)
H3A−0.07210.1356−0.04800.034*
C40.01531 (9)0.13683 (13)0.1257 (2)0.0256 (3)
H4A0.02230.06240.13040.031*
C50.06174 (8)0.20416 (12)0.22571 (17)0.0191 (3)
C60.12010 (8)0.15226 (12)0.34544 (18)0.0194 (3)
C70.26917 (8)0.23667 (12)0.62477 (18)0.0192 (3)
H7A0.26760.31010.60220.023*
C80.32580 (8)0.19465 (12)0.74905 (17)0.0176 (3)
C90.33274 (8)0.08431 (12)0.78078 (18)0.0200 (3)
H9A0.30040.03600.72180.024*
C100.38701 (9)0.04540 (12)0.89869 (19)0.0216 (3)
H10A0.3906−0.02820.91930.026*
C110.43586 (8)0.11734 (13)0.98564 (19)0.0216 (3)
H11A0.47240.09141.06440.026*
C120.43089 (8)0.22761 (12)0.95664 (18)0.0198 (3)
H12A0.46440.27511.01450.024*
C130.37506 (8)0.26656 (11)0.83943 (17)0.0179 (3)
C140.40996 (9)0.45051 (12)0.90037 (19)0.0212 (3)
H14A0.46240.44570.88250.025*
H14B0.40840.43691.00910.025*
C150.37824 (9)0.55991 (12)0.85576 (17)0.0201 (3)
C160.41662 (9)0.63173 (13)0.77156 (19)0.0240 (3)
H16A0.46380.61290.74550.029*
C170.38469 (10)0.73098 (13)0.7266 (2)0.0291 (4)
H17A0.41040.77840.67020.035*
C180.31456 (10)0.75978 (13)0.7654 (2)0.0287 (4)
H18A0.29320.82630.73490.034*
C190.27639 (10)0.68912 (14)0.8500 (2)0.0278 (4)
H19A0.22950.70860.87680.033*
C200.30781 (9)0.58952 (13)0.89466 (19)0.0245 (3)
H20A0.28180.54230.95080.029*
O30.17234 (7)0.45730 (9)0.42445 (15)0.0268 (3)
C210.21264 (10)0.52275 (14)0.5437 (2)0.0269 (3)
H21A0.26570.50390.55830.040*
H21B0.19260.51100.63830.040*
H21C0.20680.59740.51490.040*
O1W0.16524 (7)0.56017 (11)0.14832 (15)0.0261 (3)
H1N20.1707 (11)0.2913 (16)0.416 (2)0.027 (5)*
H1O30.1722 (13)0.4936 (19)0.339 (3)0.051 (7)*
H1W10.1606 (14)0.518 (2)0.079 (3)0.052 (7)*
H2W10.1375 (15)0.616 (2)0.115 (3)0.056 (7)*
U11U22U33U12U13U23
O10.0287 (6)0.0175 (5)0.0262 (6)−0.0017 (4)−0.0046 (5)0.0026 (5)
O20.0244 (5)0.0139 (5)0.0223 (5)−0.0010 (4)−0.0054 (4)−0.0011 (4)
N10.0228 (6)0.0274 (7)0.0257 (7)0.0022 (5)−0.0009 (6)0.0010 (6)
N20.0213 (6)0.0161 (6)0.0187 (6)−0.0002 (5)−0.0032 (5)0.0025 (5)
N30.0188 (6)0.0188 (6)0.0199 (6)0.0012 (4)−0.0016 (5)0.0024 (5)
C10.0232 (7)0.0209 (7)0.0259 (8)−0.0017 (6)−0.0038 (6)−0.0008 (7)
C20.0259 (8)0.0224 (8)0.0309 (9)0.0036 (6)−0.0012 (7)0.0024 (7)
C30.0274 (8)0.0283 (9)0.0259 (8)−0.0019 (6)−0.0078 (7)−0.0013 (7)
C40.0275 (8)0.0196 (8)0.0269 (8)−0.0007 (6)−0.0045 (7)−0.0009 (7)
C50.0181 (6)0.0209 (7)0.0179 (7)−0.0005 (5)0.0012 (6)0.0020 (6)
C60.0203 (7)0.0200 (7)0.0173 (7)−0.0019 (5)0.0011 (6)0.0000 (6)
C70.0207 (7)0.0156 (7)0.0202 (7)−0.0008 (5)−0.0008 (6)0.0008 (6)
C80.0181 (6)0.0165 (7)0.0177 (7)0.0006 (5)0.0005 (5)0.0012 (6)
C90.0205 (7)0.0174 (7)0.0213 (7)−0.0007 (5)0.0006 (6)−0.0015 (6)
C100.0231 (7)0.0163 (7)0.0249 (8)0.0022 (5)0.0020 (6)0.0035 (6)
C110.0195 (7)0.0233 (8)0.0208 (7)0.0039 (5)−0.0006 (6)0.0025 (6)
C120.0178 (6)0.0209 (7)0.0195 (7)0.0003 (5)−0.0010 (6)−0.0012 (6)
C130.0197 (6)0.0152 (7)0.0190 (7)0.0011 (5)0.0032 (6)−0.0001 (6)
C140.0225 (7)0.0170 (7)0.0222 (7)−0.0024 (5)−0.0032 (6)−0.0014 (6)
C150.0252 (7)0.0170 (7)0.0165 (7)−0.0015 (5)−0.0022 (6)−0.0019 (6)
C160.0245 (7)0.0228 (8)0.0234 (8)−0.0026 (6)−0.0003 (6)−0.0005 (7)
C170.0339 (9)0.0220 (8)0.0294 (9)−0.0054 (6)−0.0013 (7)0.0039 (7)
C180.0361 (9)0.0174 (8)0.0294 (9)0.0018 (6)−0.0053 (8)−0.0013 (7)
C190.0300 (8)0.0251 (8)0.0270 (8)0.0051 (6)0.0003 (7)−0.0035 (7)
C200.0291 (8)0.0222 (8)0.0220 (8)−0.0002 (6)0.0032 (7)−0.0003 (7)
O30.0307 (6)0.0224 (6)0.0244 (6)−0.0056 (4)−0.0052 (5)0.0018 (5)
C210.0288 (8)0.0243 (8)0.0262 (8)−0.0023 (6)0.0000 (7)−0.0033 (7)
O1W0.0298 (6)0.0224 (6)0.0231 (6)0.0033 (5)−0.0058 (5)−0.0012 (5)
O1—C61.2263 (18)C11—C121.390 (2)
O2—C131.3619 (17)C11—H11A0.9300
O2—C141.4382 (18)C12—C131.400 (2)
N1—C31.336 (2)C12—H12A0.9300
N1—C21.338 (2)C14—C151.497 (2)
N2—C61.3542 (19)C14—H14A0.9700
N2—N31.3817 (18)C14—H14B0.9700
N2—H1N20.91 (2)C15—C201.394 (2)
N3—C71.2881 (19)C15—C161.397 (2)
C1—C51.383 (2)C16—C171.386 (2)
C1—C21.385 (2)C16—H16A0.9300
C1—H1A0.9300C17—C181.386 (3)
C2—H2A0.9300C17—H17A0.9300
C3—C41.387 (2)C18—C191.387 (2)
C3—H3A0.9300C18—H18A0.9300
C4—C51.387 (2)C19—C201.386 (2)
C4—H4A0.9300C19—H19A0.9300
C5—C61.502 (2)C20—H20A0.9300
C7—C81.461 (2)O3—C211.426 (2)
C7—H7A0.9300O3—H1O30.88 (2)
C8—C91.397 (2)C21—H21A0.9600
C8—C131.406 (2)C21—H21B0.9600
C9—C101.388 (2)C21—H21C0.9600
C9—H9A0.9300O1W—H1W10.80 (3)
C10—C111.388 (2)O1W—H2W10.88 (3)
C10—H10A0.9300
C13—O2—C14117.99 (12)C11—C12—C13119.40 (14)
C3—N1—C2116.47 (15)C11—C12—H12A120.3
C6—N2—N3116.85 (13)C13—C12—H12A120.3
C6—N2—H1N2123.0 (12)O2—C13—C12123.87 (14)
N3—N2—H1N2120.1 (12)O2—C13—C8115.77 (13)
C7—N3—N2115.66 (13)C12—C13—C8120.35 (13)
C5—C1—C2119.11 (15)O2—C14—C15107.03 (12)
C5—C1—H1A120.4O2—C14—H14A110.3
C2—C1—H1A120.4C15—C14—H14A110.3
N1—C2—C1123.90 (15)O2—C14—H14B110.3
N1—C2—H2A118.0C15—C14—H14B110.3
C1—C2—H2A118.0H14A—C14—H14B108.6
N1—C3—C4123.64 (16)C20—C15—C16119.24 (14)
N1—C3—H3A118.2C20—C15—C14119.41 (14)
C4—C3—H3A118.2C16—C15—C14121.32 (14)
C5—C4—C3119.19 (15)C17—C16—C15120.22 (15)
C5—C4—H4A120.4C17—C16—H16A119.9
C3—C4—H4A120.4C15—C16—H16A119.9
C1—C5—C4117.68 (14)C16—C17—C18120.22 (16)
C1—C5—C6124.60 (14)C16—C17—H17A119.9
C4—C5—C6117.66 (14)C18—C17—H17A119.9
O1—C6—N2122.82 (14)C17—C18—C19119.84 (15)
O1—C6—C5120.34 (14)C17—C18—H18A120.1
N2—C6—C5116.84 (13)C19—C18—H18A120.1
N3—C7—C8119.84 (13)C20—C19—C18120.24 (16)
N3—C7—H7A120.1C20—C19—H19A119.9
C8—C7—H7A120.1C18—C19—H19A119.9
C9—C8—C13118.68 (13)C19—C20—C15120.24 (15)
C9—C8—C7121.79 (13)C19—C20—H20A119.9
C13—C8—C7119.53 (13)C15—C20—H20A119.9
C10—C9—C8121.22 (14)C21—O3—H1O3105.8 (16)
C10—C9—H9A119.4O3—C21—H21A109.5
C8—C9—H9A119.4O3—C21—H21B109.5
C9—C10—C11119.40 (14)H21A—C21—H21B109.5
C9—C10—H10A120.3O3—C21—H21C109.5
C11—C10—H10A120.3H21A—C21—H21C109.5
C10—C11—C12120.93 (14)H21B—C21—H21C109.5
C10—C11—H11A119.5H1W1—O1W—H2W1107 (2)
C12—C11—H11A119.5
C6—N2—N3—C7179.30 (13)C9—C10—C11—C120.3 (2)
C3—N1—C2—C10.1 (2)C10—C11—C12—C130.9 (2)
C5—C1—C2—N1−0.8 (3)C14—O2—C13—C12−2.2 (2)
C2—N1—C3—C40.5 (2)C14—O2—C13—C8176.90 (12)
N1—C3—C4—C5−0.4 (3)C11—C12—C13—O2177.34 (13)
C2—C1—C5—C40.9 (2)C11—C12—C13—C8−1.7 (2)
C2—C1—C5—C6−176.15 (14)C9—C8—C13—O2−177.83 (12)
C3—C4—C5—C1−0.3 (2)C7—C8—C13—O22.38 (19)
C3—C4—C5—C6176.90 (14)C9—C8—C13—C121.3 (2)
N3—N2—C6—O1−3.1 (2)C7—C8—C13—C12−178.47 (13)
N3—N2—C6—C5176.55 (12)C13—O2—C14—C15−171.52 (12)
C1—C5—C6—O1169.54 (15)O2—C14—C15—C2069.93 (18)
C4—C5—C6—O1−7.5 (2)O2—C14—C15—C16−107.99 (16)
C1—C5—C6—N2−10.1 (2)C20—C15—C16—C17−0.4 (2)
C4—C5—C6—N2172.90 (14)C14—C15—C16—C17177.56 (15)
N2—N3—C7—C8−179.56 (12)C15—C16—C17—C180.2 (3)
N3—C7—C8—C93.6 (2)C16—C17—C18—C190.2 (3)
N3—C7—C8—C13−176.60 (13)C17—C18—C19—C20−0.5 (3)
C13—C8—C9—C10−0.1 (2)C18—C19—C20—C150.4 (3)
C7—C8—C9—C10179.69 (14)C16—C15—C20—C190.1 (2)
C8—C9—C10—C11−0.7 (2)C14—C15—C20—C19−177.91 (15)
D—H···AD—HH···AD···AD—H···A
N2—H1N2···O30.91 (2)2.06 (2)2.9549 (18)169.9 (16)
O3—H1O3···O1W0.87 (3)1.85 (3)2.7165 (19)174 (3)
O1W—H1W1···O1i0.80 (3)2.11 (3)2.8713 (18)160 (2)
O1W—H1W1···N3i0.80 (3)2.62 (3)3.2119 (19)133 (2)
O1W—H2W1···N1ii0.87 (3)2.05 (3)2.898 (2)163 (2)
C1—H1A···O30.932.273.189 (2)169
C2—H2A···O1iii0.932.483.229 (2)137
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H1N2⋯O30.91 (2)2.06 (2)2.9549 (18)169.9 (16)
O3—H1O3⋯O1W0.87 (3)1.85 (3)2.7165 (19)174 (3)
O1W—H1W1⋯O1i0.80 (3)2.11 (3)2.8713 (18)160 (2)
O1W—H1W1⋯N3i0.80 (3)2.62 (3)3.2119 (19)133 (2)
O1W—H2W1⋯N1ii0.87 (3)2.05 (3)2.898 (2)163 (2)
C1—H1A⋯O30.932.273.189 (2)169
C2—H2A⋯O1iii0.932.483.229 (2)137

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'-(2,4,6-Trihydroxy-benzyl-idene)isonicotinohydrazide sesquihydrate.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Wan-Sin Loh; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-04-28

7.  (E)-N'-(2,4,5-Trimethoxy-benzyl-idene)isonicotinohydrazide dihydrate.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Chin Sing Yeap; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-04-30

8.  (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

9.  Structure validation in chemical crystallography.

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

1.  (E)-N'-[4-(Dimethyl-amino)-benzyl-idene]-4-hy-droxy-benzohydrazide hemihydrate.

Authors:  Huanyu Liu
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-06-05

2.  N'-[(1E,2E)-3,7-Dimethyl-octa-2,6-dien-1-yl-idene]pyridine-4-carbohydrazide.

Authors:  Mashooq A Bhat; Hatem A Abdel-Aziz; Hazem A Ghabbour; Madhukar Hemamalini; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-03-24
  2 in total

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