Literature DB >> 21589177

4,5,6,7,8,9-Hexahydro-2H-cyclo-octa[c]pyrazol-1-ium-3-olate.

Hoong-Kun Fun, Chin Sing Yeap, R Venkat Ragavan, V Vijayakumar, S Sarveswari.   

Abstract

The title compound, C(9)H(14)N(2)O, exists in the zwitterionic form in the crystal. The cyclo-octane ring adopts a twisted boat-chair conformation. In the crystal, inter-molecular N-H⋯O hydrogen bonds link the mol-ecules into sheets lying parallel to bc. The structure is also stabilized by π-π inter-actions, with a centroid-to-centroid distance of 3.5684 (8) Å.

Entities:  

Year:  2010        PMID: 21589177      PMCID: PMC3009207          DOI: 10.1107/S1600536810043904

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


Related literature

For pyrazole derivatives and their microbial activities, see: Ragavan et al. (2009 ▶, 2010 ▶). For a related structure, see: Xiong et al. (2007 ▶). For the stability of the temperature controller used for data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C9H14N2O M = 166.22 Monoclinic, a = 12.8078 (2) Å b = 6.7758 (1) Å c = 10.7096 (2) Å β = 111.620 (1)° V = 864.03 (2) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.54 × 0.24 × 0.11 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.956, T max = 0.991 6990 measured reflections 1680 independent reflections 1474 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.095 S = 1.05 1680 reflections 117 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.25 e Å−3 Δρmin = −0.25 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/S1600536810043904/fj2356sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810043904/fj2356Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C9H14N2OF(000) = 360
Mr = 166.22Dx = 1.278 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3802 reflections
a = 12.8078 (2) Åθ = 3.5–30.1°
b = 6.7758 (1) ŵ = 0.09 mm1
c = 10.7096 (2) ÅT = 100 K
β = 111.620 (1)°Plate, colourless
V = 864.03 (2) Å30.54 × 0.24 × 0.11 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer1680 independent reflections
Radiation source: fine-focus sealed tube1474 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 26.0°, θmin = 1.7°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −15→15
Tmin = 0.956, Tmax = 0.991k = −8→8
6990 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)] = 0.037Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.095H atoms treated by a mixture of independent and constrained refinement
S = 1.05w = 1/[σ2(Fo2) + (0.047P)2 + 0.3516P] where P = (Fo2 + 2Fc2)/3
1680 reflections(Δ/σ)max < 0.001
117 parametersΔρmax = 0.25 e Å3
0 restraintsΔρmin = −0.25 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 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
O10.41579 (8)0.06094 (13)0.31883 (8)0.0190 (2)
N10.44456 (9)0.21181 (16)0.52370 (10)0.0160 (3)
N20.41423 (9)0.38447 (16)0.56789 (11)0.0154 (3)
C10.34257 (10)0.48051 (18)0.46046 (12)0.0149 (3)
C20.28502 (11)0.66563 (19)0.47482 (13)0.0177 (3)
H2A0.27110.74760.39610.021*
H2B0.33350.73840.55250.021*
C30.17257 (11)0.6209 (2)0.49123 (12)0.0189 (3)
H3A0.18830.57340.58180.023*
H3B0.13060.74300.48070.023*
C40.09909 (11)0.4691 (2)0.39200 (12)0.0185 (3)
H4A0.02950.45550.40750.022*
H4B0.13710.34260.41130.022*
C50.07002 (11)0.5164 (2)0.24164 (12)0.0191 (3)
H5A−0.01050.50250.19540.023*
H5B0.08880.65340.23390.023*
C60.12881 (11)0.38840 (19)0.16907 (12)0.0189 (3)
H6A0.09050.40650.07310.023*
H6B0.12020.25100.18890.023*
C70.25452 (11)0.42986 (19)0.20469 (12)0.0177 (3)
H7A0.27950.35810.14240.021*
H7B0.26400.56950.19180.021*
C80.32877 (10)0.37496 (19)0.34518 (12)0.0153 (3)
C90.39626 (10)0.20329 (18)0.38724 (12)0.0150 (3)
H1N10.4969 (14)0.125 (3)0.5823 (17)0.030 (4)*
H1N20.4229 (14)0.397 (3)0.6572 (19)0.037 (5)*
U11U22U33U12U13U23
O10.0272 (5)0.0181 (5)0.0123 (4)0.0062 (4)0.0082 (4)0.0006 (3)
N10.0201 (6)0.0158 (5)0.0122 (5)0.0031 (4)0.0061 (4)0.0007 (4)
N20.0181 (6)0.0167 (5)0.0122 (5)0.0012 (4)0.0065 (4)−0.0012 (4)
C10.0149 (6)0.0163 (6)0.0150 (6)−0.0015 (5)0.0072 (5)0.0013 (5)
C20.0214 (7)0.0155 (6)0.0166 (6)−0.0001 (5)0.0076 (5)−0.0017 (5)
C30.0204 (7)0.0207 (7)0.0165 (6)0.0025 (5)0.0078 (5)−0.0021 (5)
C40.0179 (7)0.0212 (7)0.0182 (6)0.0003 (5)0.0090 (5)−0.0014 (5)
C50.0179 (7)0.0217 (7)0.0163 (7)0.0025 (5)0.0045 (5)−0.0006 (5)
C60.0223 (7)0.0203 (7)0.0130 (6)0.0034 (5)0.0051 (5)0.0004 (5)
C70.0227 (7)0.0192 (6)0.0126 (6)0.0053 (5)0.0082 (5)0.0035 (5)
C80.0165 (6)0.0168 (6)0.0144 (6)0.0001 (5)0.0078 (5)0.0012 (5)
C90.0168 (6)0.0172 (6)0.0118 (6)−0.0001 (5)0.0061 (5)0.0011 (5)
O1—C91.2902 (15)C4—C51.5467 (17)
N1—C91.3622 (16)C4—H4A0.9700
N1—N21.3708 (15)C4—H4B0.9700
N1—H1N10.939 (18)C5—C61.5343 (17)
N2—C11.3459 (16)C5—H5A0.9700
N2—H1N20.925 (19)C5—H5B0.9700
C1—C81.3807 (17)C6—C71.5377 (18)
C1—C21.4912 (17)C6—H6A0.9700
C2—C31.5438 (17)C6—H6B0.9700
C2—H2A0.9700C7—C81.5007 (17)
C2—H2B0.9700C7—H7A0.9700
C3—C41.5283 (18)C7—H7B0.9700
C3—H3A0.9700C8—C91.4199 (17)
C3—H3B0.9700
C9—N1—N2109.39 (10)H4A—C4—H4B107.4
C9—N1—H1N1128.4 (10)C6—C5—C4115.83 (11)
N2—N1—H1N1121.9 (10)C6—C5—H5A108.3
C1—N2—N1107.96 (10)C4—C5—H5A108.3
C1—N2—H1N2128.7 (11)C6—C5—H5B108.3
N1—N2—H1N2119.5 (11)C4—C5—H5B108.3
N2—C1—C8109.65 (11)H5A—C5—H5B107.4
N2—C1—C2121.73 (11)C5—C6—C7115.82 (11)
C8—C1—C2128.51 (11)C5—C6—H6A108.3
C1—C2—C3111.34 (10)C7—C6—H6A108.3
C1—C2—H2A109.4C5—C6—H6B108.3
C3—C2—H2A109.4C7—C6—H6B108.3
C1—C2—H2B109.4H6A—C6—H6B107.4
C3—C2—H2B109.4C8—C7—C6114.98 (10)
H2A—C2—H2B108.0C8—C7—H7A108.5
C4—C3—C2114.47 (10)C6—C7—H7A108.5
C4—C3—H3A108.6C8—C7—H7B108.5
C2—C3—H3A108.6C6—C7—H7B108.5
C4—C3—H3B108.6H7A—C7—H7B107.5
C2—C3—H3B108.6C1—C8—C9106.16 (11)
H3A—C3—H3B107.6C1—C8—C7126.38 (11)
C3—C4—C5115.79 (11)C9—C8—C7127.44 (11)
C3—C4—H4A108.3O1—C9—N1122.31 (11)
C5—C4—H4A108.3O1—C9—C8130.92 (11)
C3—C4—H4B108.3N1—C9—C8106.76 (11)
C5—C4—H4B108.3
C9—N1—N2—C12.98 (13)C2—C1—C8—C9−175.54 (12)
N1—N2—C1—C8−2.13 (13)N2—C1—C8—C7178.99 (11)
N1—N2—C1—C2174.25 (11)C2—C1—C8—C72.9 (2)
N2—C1—C2—C3−89.09 (14)C6—C7—C8—C1−77.60 (16)
C8—C1—C2—C386.55 (15)C6—C7—C8—C9100.55 (14)
C1—C2—C3—C4−46.15 (14)N2—N1—C9—O1176.18 (11)
C2—C3—C4—C5−55.64 (15)N2—N1—C9—C8−2.61 (13)
C3—C4—C5—C6108.08 (13)C1—C8—C9—O1−177.37 (13)
C4—C5—C6—C7−72.87 (15)C7—C8—C9—O14.2 (2)
C5—C6—C7—C868.15 (15)C1—C8—C9—N11.29 (13)
N2—C1—C8—C90.52 (14)C7—C8—C9—N1−177.16 (11)
D—H···AD—HH···AD···AD—H···A
N1—H1N1···O1i0.938 (19)1.757 (19)2.6900 (14)173.0 (19)
N2—H1N2···O1ii0.925 (19)1.789 (19)2.7056 (14)170.1 (18)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N1⋯O1i0.938 (19)1.757 (19)2.6900 (14)173.0 (19)
N2—H1N2⋯O1ii0.925 (19)1.789 (19)2.7056 (14)170.1 (18)

Symmetry codes: (i) ; (ii) .

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