Literature DB >> 22904845

3,6-Diaza-octane-1,8-diaminium diiodide.

Ignacy Cukrowski1, Adedapo S Adeyinka, David C Liles.   

Abstract

The asymmetric unit of the title salt, C(6)H(20)N(4) (2+)·2I(-), comprises half a 3,6-diaza-octane-1,8-diaminium dication plus an I(-) anion. The dications are symmetrical and lie across crystallographic centres of inversion. In the crystal, the ions form a network involving mainly weak N-H⋯I inter-molecular inter-actions: two H atoms of the ammonium group form inter-actions with two I(-) anions and the H atom of the secondary amine forms a weak inter-action with a third I(-) cation. The third ammonium H atom is hydrogen bonded to a secondary amine of an adjacent cation. The backbone of the cation does not form a uniformly trans chain, but is 'kinked' [C-N-C-C torsion angle = 71.5 (2)°], probably to accommodate the direct hydrogen bond between the ammonium group and the secondary amine in an adjacent cation.

Entities:  

Year:  2012        PMID: 22904845      PMCID: PMC3414312          DOI: 10.1107/S1600536812030127

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


Related literature

For the structure of a dihydrate of the title compound, together with its isostructural Cl− and Br− analogues, see Ilioudis et al. (2000 ▶).

Experimental

Crystal data

C6H20N4 2+·2I− M = 402.06 Orthorhombic, a = 8.1253 (2) Å b = 8.6138 (2) Å c = 18.9368 (4) Å V = 1325.38 (5) Å3 Z = 4 Mo Kα radiation μ = 4.71 mm−1 T = 180 K 0.14 × 0.10 × 0.07 mm

Data collection

Nonius KappaCCD diffractometer Absorption correction: multi-scan (SORTAV; Blessing, 1995 ▶) T min = 0.688, T max = 0.820 13267 measured reflections 2635 independent reflections 1905 reflections with I > 2σ(I) R int = 0.042

Refinement

R[F 2 > 2σ(F 2)] = 0.023 wR(F 2) = 0.053 S = 0.97 2635 reflections 67 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.55 e Å−3 Δρmin = −1.05 e Å−3 Data collection: COLLECT (Nonius, 1998 ▶); cell refinement: SCALEPACK (Otwinowski & Minor, 1997 ▶); data reduction: DENZO (Otwinowski & Minor, 1997 ▶), SCALEPACK and SORTAV (Blessing, 1995 ▶); program(s) used to solve structure: SIR92 (Altomare et al., 1994 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶), POV-RAY (Cason, 2004 ▶) and Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: SHELXL97 and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812030127/jj2132sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812030127/jj2132Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812030127/jj2132Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H20N42+·2IF(000) = 760
Mr = 402.06Dx = 2.015 Mg m3
Orthorhombic, PbcaMo Kα radiation, λ = 0.71070 Å
Hall symbol: -P 2ac 2abCell parameters from 8314 reflections
a = 8.1253 (2) Åθ = 1.0–33.7°
b = 8.6138 (2) ŵ = 4.71 mm1
c = 18.9368 (4) ÅT = 180 K
V = 1325.38 (5) Å3Block, colourless
Z = 40.14 × 0.10 × 0.07 mm
Nonius KappaCCD diffractometer2635 independent reflections
Radiation source: fine-focus sealed tube1905 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.042
Thin slice ω and φ scansθmax = 33.7°, θmin = 3.6°
Absorption correction: multi-scan (SORTAV; Blessing, 1995)h = −12→12
Tmin = 0.688, Tmax = 0.820k = −13→13
13267 measured reflectionsl = −29→29
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.023Hydrogen site location: difference Fourier map
wR(F2) = 0.053H atoms treated by a mixture of independent and constrained refinement
S = 0.97w = 1/[σ2(Fo2) + (0.0251P)2] where P = (Fo2 + 2Fc2)/3
2635 reflections(Δ/σ)max = 0.002
67 parametersΔρmax = 0.55 e Å3
1 restraintΔρmin = −1.05 e Å3
0 constraints
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
I10.151716 (14)0.140690 (14)0.149443 (6)0.03028 (5)
N10.07593 (17)0.28497 (19)0.32351 (8)0.0259 (3)
H1A0.063 (2)0.258 (2)0.2810 (11)0.031*
H1B−0.012 (3)0.349 (2)0.3373 (10)0.031*
H1C0.093 (3)0.175 (3)0.3520 (9)0.031*
C20.2280 (2)0.37794 (18)0.32818 (10)0.0273 (4)
H2A0.21380.47550.30120.033*
H2B0.32010.31940.30670.033*
C30.2694 (2)0.4159 (2)0.40401 (8)0.0282 (3)
H3A0.17590.47070.42640.034*
H3B0.29010.31900.43070.034*
N40.41655 (16)0.51470 (17)0.40564 (7)0.0241 (3)
H40.4916 (18)0.465 (2)0.3862 (10)0.029*
C50.4643 (2)0.5645 (2)0.47735 (8)0.0277 (3)
H5A0.36630.60760.50140.033*
H5B0.54670.64880.47340.033*
U11U22U33U12U13U23
I10.02627 (7)0.02885 (7)0.03570 (8)−0.00126 (4)0.00130 (4)0.00008 (4)
N10.0236 (7)0.0278 (8)0.0264 (7)−0.0015 (6)−0.0020 (6)0.0004 (6)
C20.0240 (8)0.0330 (10)0.0249 (8)−0.0035 (7)−0.0018 (6)0.0000 (6)
C30.0270 (8)0.0331 (9)0.0245 (8)−0.0044 (7)−0.0020 (6)0.0020 (6)
N40.0219 (6)0.0265 (7)0.0238 (6)−0.0007 (5)−0.0013 (5)−0.0011 (5)
C50.0305 (8)0.0253 (9)0.0271 (8)0.0005 (7)−0.0045 (7)−0.0004 (6)
N1—C21.475 (2)C3—H3A0.9900
N1—H1A0.846 (19)C3—H3B0.9900
N1—H1B0.94 (2)N4—C51.476 (2)
N1—H1C1.10 (2)N4—H40.833 (14)
C2—C31.511 (2)C5—C5i1.519 (3)
C2—H2A0.9900C5—H5A0.9900
C2—H2B0.9900C5—H5B0.9900
C3—N41.467 (2)
C2—N1—H1A108.2 (13)C2—C3—H3A109.9
C2—N1—H1B107.8 (12)N4—C3—H3B109.9
H1A—N1—H1B109.4 (17)C2—C3—H3B109.9
C2—N1—H1C109.6 (13)H3A—C3—H3B108.3
H1A—N1—H1C104.0 (16)C3—N4—C5113.71 (12)
H1B—N1—H1C117.5 (16)C3—N4—H4106.6 (13)
N1—C2—C3111.17 (15)C5—N4—H4111.4 (13)
N1—C2—H2A109.4N4—C5—C5i114.02 (18)
C3—C2—H2A109.4N4—C5—H5A108.7
N1—C2—H2B109.4C5i—C5—H5A108.7
C3—C2—H2B109.4N4—C5—H5B108.7
H2A—C2—H2B108.0C5i—C5—H5B108.7
N4—C3—C2109.09 (13)H5A—C5—H5B107.6
N4—C3—H3A109.9
N1—C2—C3—N4−177.22 (14)C3—N4—C5—C5i71.5 (2)
C2—C3—N4—C5177.58 (13)
D—H···AD—HH···AD···AD—H···A
N1—H1C···N4ii1.10 (2)1.71 (2)2.800 (2)168.3 (19)
N1—H1A···I10.846 (19)2.78 (2)3.5761 (16)157.2 (16)
N1—H1B···I1iii0.94 (2)2.77 (2)3.6156 (16)150.1 (16)
N4—H4···I1iv0.83 (1)3.15 (2)3.8882 (14)149 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1C⋯N4i 1.10 (2)1.71 (2)2.800 (2)168.3 (19)
N1—H1A⋯I10.846 (19)2.78 (2)3.5761 (16)157.2 (16)
N1—H1B⋯I1ii 0.94 (2)2.77 (2)3.6156 (16)150.1 (16)
N4—H4⋯I1iii 0.83 (1)3.15 (2)3.8882 (14)149 (2)

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

  3 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.  Structure validation in chemical crystallography.

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

1.  Crystal structure of 1,4-bis-(3-ammonio-prop-yl)piperazine-1,4-diium bis-[dichromate(VI)].

Authors:  S Vetrivel; E Vinoth; R U Mullai; R Aruljothi; M NizamMohideen
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2016-04-05

2.  2,2'-(Piperazine-1,4-di-yl)diethanaminium dibenzoate.

Authors:  Ignacy Cukrowski; Adedapo S Adeyinka; David C Liles
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-07-07
  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.