Literature DB >> 23284550

Piperidine-1-carboximidamide.

Ioannis Tiritiris1.   

Abstract

In the title compound, C(6)H(13)N(3), the C=N and C-N bond lengths in the CN(3) unit are 1.3090 (17), and 1.3640 (17) (C-NH(2)) and 1.3773 (16) Å, indicating double- and single-bond character, respectively. The N-C-N angles are 116.82 (12), 119.08 (11) and 124.09 (11)°, showing a deviation of the CN(3) plane from an ideal trigonal-planar geometry. The piperidine ring is in a chair conformation. In the crystal, mol-ecules are linked by N-H⋯N hydrogen bonds, forming a two-dimensional network along the ac plane.

Entities:  

Year:  2012        PMID: 23284550      PMCID: PMC3515330          DOI: 10.1107/S1600536812044467

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


Related literature

For the crystal structure of 4-morpholine­carboxamidine, see: Tiritiris (2012 ▶). For the crystal structure of bis­(piperidin-1-yl)methanone, see: Betz et al. (2011 ▶).

Experimental

Crystal data

C6H13N3 M = 127.19 Monoclinic, a = 12.2193 (9) Å b = 5.5784 (5) Å c = 10.4885 (7) Å β = 91.887 (4)° V = 714.55 (10) Å3 Z = 4 Cu Kα radiation μ = 0.60 mm−1 T = 100 K 0.45 × 0.26 × 0.06 mm

Data collection

Bruker Kappa APEXII DUO diffractometer Absorption correction: multi-scan (Blessing, 1995 ▶) T min = 0.830, T max = 0.965 4190 measured reflections 1413 independent reflections 1116 reflections with I > 2σ(I) R int = 0.049

Refinement

R[F 2 > 2σ(F 2)] = 0.045 wR(F 2) = 0.112 S = 1.03 1413 reflections 94 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.19 e Å−3 Δρmin = −0.21 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: DIAMOND (Brandenburg & Putz, 2005 ▶); software used to prepare material for publication: SHELXL97. Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812044467/go2073sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812044467/go2073Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812044467/go2073Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H13N3F(000) = 280
Mr = 127.19Dx = 1.182 Mg m3
Monoclinic, P21/cMelting point: 409 K
Hall symbol: -P 2ybcCu Kα radiation, λ = 1.54178 Å
a = 12.2193 (9) ÅCell parameters from 4190 reflections
b = 5.5784 (5) Åθ = 3.6–73.5°
c = 10.4885 (7) ŵ = 0.60 mm1
β = 91.887 (4)°T = 100 K
V = 714.55 (10) Å3Plate, colorless
Z = 40.45 × 0.26 × 0.06 mm
Bruker Kappa APEXII DUO diffractometer1413 independent reflections
Radiation source: sealed tube1116 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.049
φ scans, and ω scansθmax = 73.5°, θmin = 3.6°
Absorption correction: multi-scan (Blessing, 1995)h = −15→15
Tmin = 0.830, Tmax = 0.965k = −6→6
4190 measured reflectionsl = −12→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)] = 0.045Hydrogen site location: difference Fourier map
wR(F2) = 0.112H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0625P)2] where P = (Fo2 + 2Fc2)/3
1413 reflections(Δ/σ)max < 0.001
94 parametersΔρmax = 0.19 e Å3
0 restraintsΔρmin = −0.21 e Å3
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
C10.38570 (11)0.2272 (2)0.20721 (12)0.0194 (3)
N10.41982 (10)0.26476 (18)0.32513 (11)0.0229 (3)
H110.4665 (14)0.393 (3)0.3256 (16)0.031 (4)*
N20.40843 (11)0.37432 (19)0.10763 (12)0.0248 (3)
H210.4040 (14)0.315 (3)0.0240 (18)0.037 (4)*
H220.4598 (14)0.497 (3)0.1251 (15)0.035 (4)*
N30.32466 (10)0.02529 (17)0.17918 (10)0.0225 (3)
C20.25890 (12)−0.0007 (2)0.06138 (13)0.0270 (4)
H2A0.2591−0.17060.03410.032*
H2B0.29150.0964−0.00670.032*
C30.14128 (12)0.0807 (2)0.08029 (14)0.0279 (4)
H3A0.14030.25400.10060.034*
H3B0.09720.05530.00050.034*
C40.09150 (13)−0.0602 (2)0.18847 (14)0.0275 (3)
H4A0.01790.00400.20540.033*
H4B0.0833−0.23040.16310.033*
C50.16364 (12)−0.0434 (2)0.30906 (14)0.0273 (4)
H5A0.1341−0.14930.37540.033*
H5B0.16290.12310.34160.033*
C60.28172 (12)−0.1171 (2)0.28289 (13)0.0246 (3)
H6A0.3282−0.09370.36100.030*
H6B0.2837−0.28920.26000.030*
U11U22U33U12U13U23
C10.0203 (7)0.0167 (6)0.0211 (7)0.0021 (4)0.0004 (5)−0.0011 (4)
N10.0271 (7)0.0187 (5)0.0228 (6)−0.0023 (4)−0.0013 (5)−0.0015 (4)
N20.0335 (7)0.0211 (5)0.0196 (6)−0.0053 (5)−0.0011 (5)−0.0009 (4)
N30.0256 (7)0.0203 (5)0.0214 (6)−0.0032 (4)−0.0036 (5)0.0001 (4)
C20.0329 (9)0.0261 (6)0.0218 (7)−0.0065 (5)−0.0021 (6)−0.0037 (5)
C30.0309 (9)0.0274 (6)0.0249 (8)−0.0016 (6)−0.0091 (6)0.0017 (5)
C40.0261 (8)0.0268 (7)0.0295 (8)0.0009 (5)−0.0013 (6)−0.0002 (5)
C50.0313 (9)0.0251 (6)0.0254 (8)−0.0022 (5)0.0012 (6)0.0016 (5)
C60.0292 (8)0.0197 (6)0.0247 (7)−0.0019 (5)−0.0040 (6)0.0048 (5)
C1—N11.3090 (17)C3—C41.5235 (19)
C1—N21.3640 (17)C3—H3A0.9900
C1—N31.3773 (16)C3—H3B0.9900
N1—H110.913 (17)C4—C51.521 (2)
N2—H210.937 (18)C4—H4A0.9900
N2—H220.943 (17)C4—H4B0.9900
N3—C61.4585 (17)C5—C61.534 (2)
N3—C21.4587 (17)C5—H5A0.9900
C2—C31.526 (2)C5—H5B0.9900
C2—H2A0.9900C6—H6A0.9900
C2—H2B0.9900C6—H6B0.9900
N1—C1—N2124.09 (11)C2—C3—H3B109.6
N1—C1—N3119.08 (11)H3A—C3—H3B108.2
N2—C1—N3116.82 (12)C5—C4—C3110.67 (12)
C1—N1—H11108.1 (11)C5—C4—H4A109.5
C1—N2—H21119.8 (10)C3—C4—H4A109.5
C1—N2—H22116.1 (10)C5—C4—H4B109.5
H21—N2—H22117.2 (14)C3—C4—H4B109.5
C1—N3—C6119.46 (11)H4A—C4—H4B108.1
C1—N3—C2122.78 (10)C4—C5—C6110.95 (12)
C6—N3—C2112.09 (10)C4—C5—H5A109.4
N3—C2—C3110.80 (11)C6—C5—H5A109.4
N3—C2—H2A109.5C4—C5—H5B109.4
C3—C2—H2A109.5C6—C5—H5B109.4
N3—C2—H2B109.5H5A—C5—H5B108.0
C3—C2—H2B109.5N3—C6—C5110.55 (11)
H2A—C2—H2B108.1N3—C6—H6A109.5
C4—C3—C2110.12 (11)C5—C6—H6A109.5
C4—C3—H3A109.6N3—C6—H6B109.5
C2—C3—H3A109.6C5—C6—H6B109.5
C4—C3—H3B109.6H6A—C6—H6B108.1
N1—C1—N3—C611.63 (18)N3—C2—C3—C4−56.89 (14)
N2—C1—N3—C6−169.57 (11)C2—C3—C4—C553.91 (15)
N1—C1—N3—C2162.94 (12)C3—C4—C5—C6−53.30 (14)
N2—C1—N3—C2−18.25 (18)C1—N3—C6—C595.35 (14)
C1—N3—C2—C3−93.09 (14)C2—N3—C6—C5−58.83 (14)
C6—N3—C2—C360.10 (13)C4—C5—C6—N355.17 (13)
D—H···AD—HH···AD···AD—H···A
N2—H21···N1i0.94 (2)2.15 (2)3.071 (1)168 (1)
N2—H22···N1ii0.94 (2)2.15 (2)3.090 (1)177 (1)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H21⋯N1i 0.94 (2)2.15 (2)3.071 (1)168 (1)
N2—H22⋯N1ii 0.94 (2)2.15 (2)3.090 (1)177 (1)

Symmetry codes: (i) ; (ii) .

  4 in total

1.  A short history of SHELX.

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

2.  An empirical correction for absorption anisotropy.

Authors:  R H Blessing
Journal:  Acta Crystallogr A       Date:  1995-01-01       Impact factor: 2.290

3.  Bis(piperidin-1-yl)methanone.

Authors:  Richard Betz; Thomas Gerber; Henk Schalekamp
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-01-15

4.  4-Morpholine-carboxamidine.

Authors:  Ioannis Tiritiris
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-13
  4 in total
  1 in total

1.  Piperidine-1-carboxamidinium ethyl carbonate.

Authors:  Ioannis Tiritiris
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-11-10
  1 in total

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