Literature DB >> 21583599

N'-(Cyclo-hexyl-carbon-yl)isonicotino-hydrazide.

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

Abstract

In the title compound, C(13)H(17)N(3)O(2), the mean plane of the cyclo-hexane ring forms a dihedral angle of 33.12 (5)° with the pyridine ring. The two O atoms are twisted away from each other, as indicated by the C-N-N-C torsion angle of -74.97 (9)°. In the crystal structure, mol-ecules are linked into a three-dimensional network by inter-molecular N-H⋯N, N-H⋯O and C-H⋯O hydrogen bonds. The structure is also stabilized by C-H⋯π inter-actions.

Entities:  

Year:  2009        PMID: 21583599      PMCID: PMC2977321          DOI: 10.1107/S1600536809027469

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


Related literature

For bond-length data, see: Allen et al. (1987 ▶). For applications of isoniazid derivatives, see: Janin (2007 ▶); Maccari et al. (2005 ▶); Slayden & Barry (2000 ▶). For the preparation, see: Besra et al. (1993 ▶). For the stability of the temperature controller used for the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C13H17N3O2 M = 247.30 Orthorhombic, a = 9.1184 (2) Å b = 11.5989 (2) Å c = 12.1684 (2) Å V = 1286.97 (4) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.60 × 0.40 × 0.33 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (; Bruker, 2005 ▶) T min = 0.941, T max = 0.971 27969 measured reflections 3210 independent reflections 3124 reflections with I > 2σ(I) R int = 0.022

Refinement

R[F 2 > 2σ(F 2)] = 0.032 wR(F 2) = 0.084 S = 1.11 3210 reflections 231 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.25 e Å−3 Δρmin = −0.34 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); 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/S1600536809027469/kj2133sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809027469/kj2133Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C13H17N3O2F(000) = 528
Mr = 247.30Dx = 1.276 Mg m3
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 9922 reflections
a = 9.1184 (2) Åθ = 2.8–35.1°
b = 11.5989 (2) ŵ = 0.09 mm1
c = 12.1684 (2) ÅT = 100 K
V = 1286.97 (4) Å3Block, colourless
Z = 40.60 × 0.40 × 0.33 mm
Bruker SMART APEXII CCD area-detector diffractometer3210 independent reflections
Radiation source: fine-focus sealed tube3124 reflections with I > 2σ(I)
graphiteRint = 0.022
φ and ω scansθmax = 35.1°, θmin = 2.4°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −14→14
Tmin = 0.941, Tmax = 0.971k = −18→17
27969 measured reflectionsl = −19→19
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.032Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.084H atoms treated by a mixture of independent and constrained refinement
S = 1.11w = 1/[σ2(Fo2) + (0.0593P)2 + 0.0754P] where P = (Fo2 + 2Fc2)/3
3210 reflections(Δ/σ)max < 0.001
231 parametersΔρmax = 0.25 e Å3
0 restraintsΔρmin = −0.34 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cyrosystems 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
O10.75737 (8)1.01913 (6)1.03928 (5)0.02041 (13)
O20.99005 (6)0.79925 (5)1.04401 (5)0.01593 (11)
N11.02861 (8)1.26064 (6)0.76325 (6)0.01714 (12)
N20.80178 (7)0.89033 (6)0.90156 (5)0.01293 (11)
N30.76418 (7)0.79834 (6)0.96907 (5)0.01347 (11)
C10.94236 (10)1.18220 (7)0.93422 (6)0.01703 (14)
C21.01495 (11)1.26604 (7)0.87318 (7)0.01889 (14)
C30.96940 (10)1.16932 (7)0.71250 (6)0.01606 (13)
C40.89624 (9)1.08036 (7)0.76639 (6)0.01426 (12)
C50.88303 (8)1.08714 (6)0.88042 (6)0.01264 (12)
C60.80847 (8)0.99670 (6)0.94875 (6)0.01322 (12)
C70.86549 (7)0.75756 (6)1.04018 (6)0.01175 (11)
C80.81852 (8)0.65554 (6)1.10913 (6)0.01238 (11)
C90.87614 (11)0.54417 (7)1.05682 (7)0.02033 (15)
C100.83192 (15)0.43958 (8)1.12611 (10)0.0300 (2)
C110.88525 (14)0.45089 (10)1.24449 (11)0.0315 (2)
C120.82967 (13)0.56214 (10)1.29578 (7)0.02597 (18)
C130.87382 (11)0.66737 (8)1.22748 (7)0.02036 (15)
H10.936 (2)1.1925 (16)1.0135 (14)0.033 (4)*
H21.062 (2)1.3365 (15)0.9082 (14)0.032 (4)*
H30.9786 (19)1.1702 (14)0.6350 (14)0.027 (4)*
H40.8560 (17)1.0205 (13)0.7227 (12)0.018 (3)*
H80.7101 (18)0.6508 (14)1.1062 (12)0.021 (3)*
H9A0.837 (2)0.5361 (17)0.9849 (16)0.042 (5)*
H9B0.9813 (19)0.5498 (15)1.0523 (14)0.028 (4)*
H10A0.869 (2)0.3690 (19)1.0921 (16)0.046 (5)*
H10B0.722 (3)0.4297 (19)1.1277 (16)0.047 (5)*
H11A0.860 (2)0.3808 (16)1.2833 (14)0.031 (4)*
H11B0.995 (3)0.454 (2)1.249 (2)0.053 (6)*
H12A0.872 (2)0.5711 (18)1.3708 (15)0.043 (5)*
H12B0.722 (2)0.5602 (16)1.2991 (13)0.032 (4)*
H13A0.8388 (18)0.7410 (13)1.2598 (12)0.018 (3)*
H13B0.985 (2)0.6778 (15)1.2258 (14)0.030 (4)*
H1N20.862 (2)0.8724 (16)0.8443 (15)0.036 (5)*
H1N30.6729 (18)0.7705 (13)0.9596 (12)0.022 (3)*
U11U22U33U12U13U23
O10.0286 (3)0.0174 (3)0.0152 (2)0.0016 (2)0.0095 (2)0.0005 (2)
O20.0107 (2)0.0156 (2)0.0215 (2)−0.00104 (18)−0.00008 (19)0.0012 (2)
N10.0205 (3)0.0136 (2)0.0173 (3)−0.0004 (2)0.0028 (2)0.0031 (2)
N20.0148 (2)0.0104 (2)0.0135 (2)−0.00010 (19)0.00287 (19)0.00212 (19)
N30.0116 (2)0.0128 (2)0.0159 (2)−0.00129 (19)−0.0005 (2)0.0046 (2)
C10.0258 (3)0.0126 (3)0.0127 (3)−0.0015 (3)0.0022 (2)−0.0006 (2)
C20.0263 (4)0.0129 (3)0.0175 (3)−0.0031 (3)0.0013 (3)0.0000 (2)
C30.0198 (3)0.0155 (3)0.0129 (3)0.0002 (3)0.0022 (2)0.0030 (2)
C40.0179 (3)0.0133 (3)0.0115 (2)−0.0005 (2)0.0009 (2)0.0011 (2)
C50.0158 (3)0.0107 (3)0.0115 (2)0.0009 (2)0.0018 (2)0.0012 (2)
C60.0149 (3)0.0116 (3)0.0131 (3)0.0016 (2)0.0026 (2)0.0014 (2)
C70.0111 (2)0.0111 (2)0.0131 (2)0.0007 (2)0.0008 (2)−0.0001 (2)
C80.0125 (2)0.0115 (3)0.0131 (3)0.0003 (2)0.0005 (2)0.0015 (2)
C90.0292 (4)0.0117 (3)0.0202 (3)−0.0009 (3)0.0069 (3)−0.0015 (2)
C100.0457 (6)0.0107 (3)0.0336 (5)−0.0014 (4)0.0128 (4)0.0013 (3)
C110.0324 (5)0.0236 (4)0.0386 (5)0.0063 (4)0.0018 (4)0.0171 (4)
C120.0337 (5)0.0278 (4)0.0164 (3)−0.0030 (4)−0.0022 (3)0.0080 (3)
C130.0275 (4)0.0196 (3)0.0139 (3)−0.0032 (3)−0.0030 (3)0.0010 (2)
O1—C61.2241 (9)C7—C81.5125 (10)
O2—C71.2353 (9)C8—C131.5321 (11)
N1—C31.3397 (11)C8—C91.5329 (11)
N1—C21.3448 (11)C8—H80.990 (16)
N2—C61.3622 (10)C9—C101.5315 (13)
N2—N31.3895 (9)C9—H9A0.95 (2)
N2—H1N20.910 (19)C9—H9B0.963 (18)
N3—C71.3513 (9)C10—C111.5260 (19)
N3—H1N30.900 (17)C10—H10A0.98 (2)
C1—C21.3912 (11)C10—H10B1.01 (2)
C1—C51.3917 (11)C11—C121.5203 (18)
C1—H10.973 (18)C11—H11A0.967 (19)
C2—H21.017 (18)C11—H11B1.00 (3)
C3—C41.3927 (11)C12—C131.5306 (13)
C3—H30.946 (17)C12—H12A0.997 (19)
C4—C51.3950 (10)C12—H12B0.98 (2)
C4—H40.948 (15)C13—H13A0.993 (15)
C5—C61.5014 (10)C13—H13B1.02 (2)
C3—N1—C2117.26 (7)C13—C8—H8111.5 (8)
C6—N2—N3117.22 (6)C9—C8—H8106.3 (9)
C6—N2—H1N2120.2 (12)C10—C9—C8110.40 (7)
N3—N2—H1N2115.2 (11)C10—C9—H9A109.4 (13)
C7—N3—N2118.60 (6)C8—C9—H9A109.8 (13)
C7—N3—H1N3126.1 (10)C10—C9—H9B110.4 (10)
N2—N3—H1N3115.3 (10)C8—C9—H9B107.9 (11)
C2—C1—C5119.18 (7)H9A—C9—H9B109.0 (17)
C2—C1—H1118.0 (11)C11—C10—C9111.57 (9)
C5—C1—H1122.8 (11)C11—C10—H10A111.1 (12)
N1—C2—C1122.85 (8)C9—C10—H10A109.8 (12)
N1—C2—H2114.5 (10)C11—C10—H10B107.9 (11)
C1—C2—H2122.6 (10)C9—C10—H10B111.2 (12)
N1—C3—C4124.18 (7)H10A—C10—H10B105.1 (17)
N1—C3—H3114.5 (10)C12—C11—C10110.75 (8)
C4—C3—H3121.3 (10)C12—C11—H11A115.7 (11)
C3—C4—C5117.90 (7)C10—C11—H11A108.2 (11)
C3—C4—H4117.7 (9)C12—C11—H11B106.4 (14)
C5—C4—H4124.4 (9)C10—C11—H11B112.2 (15)
C1—C5—C4118.62 (7)H11A—C11—H11B103.5 (18)
C1—C5—C6117.98 (6)C11—C12—C13111.48 (8)
C4—C5—C6123.41 (7)C11—C12—H12A109.6 (12)
O1—C6—N2123.70 (7)C13—C12—H12A108.2 (12)
O1—C6—C5121.48 (7)C11—C12—H12B109.3 (11)
N2—C6—C5114.82 (6)C13—C12—H12B107.7 (11)
O2—C7—N3121.04 (7)H12A—C12—H12B110.6 (16)
O2—C7—C8123.07 (7)C12—C13—C8110.63 (7)
N3—C7—C8115.81 (6)C12—C13—H13A112.7 (9)
C7—C8—C13110.98 (6)C8—C13—H13A110.1 (9)
C7—C8—C9109.38 (6)C12—C13—H13B111.5 (10)
C13—C8—C9110.67 (7)C8—C13—H13B108.6 (9)
C7—C8—H8107.9 (9)H13A—C13—H13B103.0 (14)
C6—N2—N3—C7−74.97 (9)N2—N3—C7—O2−1.43 (11)
C3—N1—C2—C1−0.37 (13)N2—N3—C7—C8−178.54 (6)
C5—C1—C2—N11.17 (14)O2—C7—C8—C1343.39 (10)
C2—N1—C3—C4−0.43 (13)N3—C7—C8—C13−139.56 (7)
N1—C3—C4—C50.40 (13)O2—C7—C8—C9−79.00 (9)
C2—C1—C5—C4−1.15 (12)N3—C7—C8—C998.04 (8)
C2—C1—C5—C6178.57 (8)C7—C8—C9—C10179.16 (8)
C3—C4—C5—C10.42 (12)C13—C8—C9—C1056.58 (10)
C3—C4—C5—C6−179.29 (7)C8—C9—C10—C11−56.32 (12)
N3—N2—C6—O1−14.45 (11)C9—C10—C11—C1255.80 (13)
N3—N2—C6—C5166.16 (6)C10—C11—C12—C13−55.73 (12)
C1—C5—C6—O123.87 (12)C11—C12—C13—C856.45 (11)
C4—C5—C6—O1−156.42 (8)C7—C8—C13—C12−178.34 (7)
C1—C5—C6—N2−156.72 (7)C9—C8—C13—C12−56.70 (10)
C4—C5—C6—N222.99 (11)
D—H···AD—HH···AD···AD—H···A
N2—H1N2···N1i0.911 (18)2.095 (18)2.9456 (10)155.0 (16)
N3—H1N3···O2ii0.900 (16)1.854 (16)2.7486 (9)172.4 (14)
C2—H2···O1iii1.017 (18)2.527 (18)3.4971 (11)159.4 (14)
C4—H4···O1iv0.948 (15)2.502 (15)3.3062 (10)142.6 (12)
C10—H10B···Cg1v1.01 (2)2.78 (3)3.7299 (14)157.1 (16)
C13—H13A···Cg1vi0.993 (15)2.958 (16)3.7039 (10)132.7 (12)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H1N2⋯N1i0.911 (18)2.095 (18)2.9456 (10)155.0 (16)
N3—H1N3⋯O2ii0.900 (16)1.854 (16)2.7486 (9)172.4 (14)
C2—H2⋯O1iii1.017 (18)2.527 (18)3.4971 (11)159.4 (14)
C4—H4⋯O1iv0.948 (15)2.502 (15)3.3062 (10)142.6 (12)
C10—H10BCg1v1.01 (2)2.78 (3)3.7299 (14)157.1 (16)
C13—H13ACg1vi0.993 (15)2.958 (16)3.7039 (10)132.7 (12)

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) . Cg1 is the centroid of the C1/C2/N1/C3–C5 ring.

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3.  A short history of SHELX.

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Review 4.  Antituberculosis drugs: ten years of research.

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6.  Structure validation in chemical crystallography.

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  3 in total

1.  N'-[(3-Methyl-2-thien-yl)carbon-yl]isonicotinohydrazide.

Authors:  H S Naveenkumar; Amirin Sadikun; Pazilah Ibrahim; Jia Hao Goh; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-08-26

2.  (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

3.  (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
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  3 in total

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