Literature DB >> 24765024

1-Methyl-piperazine-1,4-dium bis-(hydrogen oxalate).

Manel Essid1, Houda Marouani1, Mohamed Rzaigui1.   

Abstract

In the crystal structure of the title compound, C5H14N2 (2+)·2HC2O4 (-), the two crystallographically independent hydrogen oxalate anions are linked by strong inter-molecular O-H⋯O hydrogen bonds, forming two independent corrugated chains parallel to the b axis. These chains are further connected by N-H⋯O and C-H⋯O hydrogen bonds originating from the organic cations, forming a three-dimensional network. The diprotonated piperazine ring adopts a chair conformation, with the methyl group occupying an equatorial position.

Entities:  

Year:  2014        PMID: 24765024      PMCID: PMC3998474          DOI: 10.1107/S1600536814003559

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


Related literature

For the biological activity of piperazines, see: Conrado et al. (2008 ▶); Brockunier et al. (2004 ▶); Bogatcheva et al. (2006 ▶). For related structures, see: Essid et al. (2013 ▶); Dutkiewicz et al. (2011 ▶); Vaidhyanathan et al. (2002 ▶); Ejsmont & Zaleski (2006 ▶). For puckering parameters, see: Cremer & Pople (1975 ▶).

Experimental

Crystal data

C5H14N2 2+·2C2HO4 − M = 280.24 Monoclinic, a = 15.649 (2) Å b = 5.681 (3) Å c = 27.230 (2) Å β = 104.05 (2)° V = 2348.4 (13) Å3 Z = 8 Ag Kα radiation λ = 0.56083 Å μ = 0.08 mm−1 T = 293 K 0.35 × 0.25 × 0.15 mm

Data collection

Enraf–Nonius CAD-4 diffractometer 7879 measured reflections 5758 independent reflections 3621 reflections with I > 2σ(I) R int = 0.027 2 standard reflections every 120 min intensity decay: none

Refinement

R[F 2 > 2σ(F 2)] = 0.052 wR(F 2) = 0.162 S = 1.01 5757 reflections 175 parameters H-atom parameters constrained Δρmax = 0.41 e Å−3 Δρmin = −0.40 e Å−3 Data collection: CAD-4 EXPRESS (Enraf–Nonius, 1994 ▶); cell refinement: CAD-4 EXPRESS; data reduction: XCAD4 (Harms & Wocadlo, 1995 ▶); program(s) used to solve structure: SHELXS86 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012 ▶) and DIAMOND (Brandenburg & Putz, 2005 ▶); software used to prepare material for publication: WinGX (Farrugia, 2012 ▶). Crystal structure: contains datablock(s) I. DOI: 10.1107/S1600536814003559/zl2578sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536814003559/zl2578Isup2.hkl CCDC reference: 987380 Additional supporting information: crystallographic information; 3D view; checkCIF report
C5H14N22+·2C2HO4F(000) = 1184
Mr = 280.24Dx = 1.585 Mg m3
Monoclinic, C2/cAg Kα radiation, λ = 0.56083 Å
Hall symbol: -C 2ycCell parameters from 25 reflections
a = 15.649 (2) Åθ = 9–11°
b = 5.681 (3) ŵ = 0.08 mm1
c = 27.230 (2) ÅT = 293 K
β = 104.05 (2)°Prism, colourless
V = 2348.4 (13) Å30.35 × 0.25 × 0.15 mm
Z = 8
Enraf–Nonius CAD-4 diffractometerRint = 0.027
Radiation source: fine-focus sealed tubeθmax = 28.0°, θmin = 2.1°
Graphite monochromatorh = −26→25
non–profiled ω scansk = −2→9
7879 measured reflectionsl = −1→45
5758 independent reflections2 standard reflections every 120 min
3621 reflections with I > 2σ(I) intensity decay: none
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.052Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.162H-atom parameters constrained
S = 1.01w = 1/[σ2(Fo2) + (0.0887P)2 + 0.6525P] where P = (Fo2 + 2Fc2)/3
5757 reflections(Δ/σ)max = 0.006
175 parametersΔρmax = 0.41 e Å3
0 restraintsΔρmin = −0.40 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
O50.26348 (5)0.43588 (15)0.19137 (4)0.02858 (19)
H50.28920.30990.19800.043*
O60.39346 (6)0.58784 (19)0.23195 (5)0.0436 (3)
O70.19490 (5)0.86264 (16)0.17619 (4)0.02856 (19)
O80.32494 (5)1.02361 (15)0.21317 (4)0.02746 (18)
C80.27389 (6)0.85255 (19)0.19799 (4)0.02018 (18)
C90.31747 (7)0.60820 (19)0.20900 (4)0.02266 (19)
O10.12751 (6)−0.01254 (18)0.05548 (4)0.0373 (2)
O20.26291 (6)0.13819 (16)0.08184 (4)0.0348 (2)
H20.23660.26420.07800.052*
O30.20184 (6)−0.45041 (16)0.06515 (4)0.0331 (2)
O40.33311 (5)−0.28288 (16)0.09557 (4)0.0334 (2)
C60.20627 (7)−0.03411 (19)0.07029 (5)0.0231 (2)
C70.25214 (7)−0.27840 (19)0.07768 (4)0.02206 (19)
N10.45019 (6)0.07065 (18)0.09040 (4)0.02256 (18)
H10.4022−0.00410.09630.027*
N20.57669 (6)0.01455 (19)0.18579 (4)0.0264 (2)
H2C0.5933−0.03810.21790.032*
H2D0.62280.08970.17860.032*
C10.42704 (10)0.1657 (3)0.03769 (5)0.0418 (3)
H1A0.38190.28300.03470.063*
H1B0.40600.04010.01430.063*
H1C0.47830.23510.03020.063*
C20.47453 (7)0.2672 (2)0.12710 (5)0.0261 (2)
H2A0.42450.37220.12370.031*
H2B0.52250.35620.11930.031*
C30.50225 (7)0.1799 (2)0.18088 (5)0.0270 (2)
H3A0.51980.31180.20370.032*
H3B0.45320.10110.18990.032*
C40.55098 (8)−0.1872 (2)0.15092 (5)0.0298 (2)
H4A0.5024−0.27100.15930.036*
H4B0.6002−0.29520.15470.036*
C50.52395 (7)−0.1014 (2)0.09704 (5)0.0284 (2)
H5A0.5739−0.02740.08810.034*
H5B0.5057−0.23420.07460.034*
U11U22U33U12U13U23
O50.0224 (3)0.0150 (3)0.0441 (5)0.0008 (3)−0.0001 (3)−0.0021 (3)
O60.0219 (4)0.0272 (5)0.0706 (7)0.0024 (3)−0.0106 (4)0.0053 (5)
O70.0187 (3)0.0206 (4)0.0417 (5)0.0014 (3)−0.0019 (3)0.0026 (3)
O80.0244 (4)0.0164 (3)0.0378 (5)−0.0035 (3)0.0001 (3)−0.0013 (3)
C80.0195 (4)0.0160 (4)0.0237 (4)0.0000 (3)0.0026 (3)0.0004 (3)
C90.0187 (4)0.0172 (4)0.0299 (5)0.0003 (3)0.0016 (3)0.0008 (4)
O10.0189 (4)0.0270 (5)0.0608 (6)0.0032 (3)−0.0003 (4)0.0064 (4)
O20.0218 (4)0.0144 (3)0.0647 (6)−0.0003 (3)0.0039 (4)−0.0006 (4)
O30.0243 (4)0.0166 (4)0.0532 (6)−0.0030 (3)−0.0006 (4)−0.0024 (4)
O40.0180 (3)0.0194 (4)0.0588 (6)0.0012 (3)0.0011 (3)0.0037 (4)
C60.0204 (4)0.0166 (4)0.0308 (5)0.0008 (3)0.0032 (4)0.0021 (4)
C70.0196 (4)0.0146 (4)0.0304 (5)−0.0001 (3)0.0029 (3)0.0002 (4)
N10.0172 (3)0.0229 (4)0.0255 (4)−0.0018 (3)0.0012 (3)0.0008 (3)
N20.0183 (4)0.0270 (5)0.0298 (5)−0.0009 (3)−0.0022 (3)0.0022 (4)
C10.0363 (6)0.0563 (10)0.0291 (6)−0.0029 (7)0.0009 (5)0.0108 (6)
C20.0234 (4)0.0174 (4)0.0347 (6)0.0014 (4)0.0018 (4)−0.0006 (4)
C30.0220 (4)0.0276 (5)0.0298 (5)0.0005 (4)0.0034 (4)−0.0054 (4)
C40.0229 (5)0.0185 (5)0.0437 (7)0.0031 (4)−0.0006 (4)0.0006 (5)
C50.0221 (4)0.0259 (5)0.0367 (6)0.0013 (4)0.0061 (4)−0.0075 (5)
O5—C91.3061 (14)N2—C41.4805 (17)
O5—H50.8200N2—H2C0.9000
O6—C91.2070 (13)N2—H2D0.9000
O7—C81.2358 (12)C1—H1A0.9600
O8—C81.2622 (13)C1—H1B0.9600
C8—C91.5437 (16)C1—H1C0.9600
O1—C61.2063 (13)C2—C31.5068 (18)
O2—C61.3067 (14)C2—H2A0.9700
O2—H20.8200C2—H2B0.9700
O3—C71.2493 (14)C3—H3A0.9700
O4—C71.2424 (13)C3—H3B0.9700
C6—C71.5530 (16)C4—C51.5059 (19)
N1—C21.4854 (16)C4—H4A0.9700
N1—C51.4897 (15)C4—H4B0.9700
N1—C11.4934 (17)C5—H5A0.9700
N1—H10.9100C5—H5B0.9700
N2—C31.4770 (15)
C9—O5—H5109.5H1A—C1—H1B109.5
O7—C8—O8126.96 (10)N1—C1—H1C109.5
O7—C8—C9118.57 (9)H1A—C1—H1C109.5
O8—C8—C9114.46 (9)H1B—C1—H1C109.5
O6—C9—O5125.91 (11)N1—C2—C3111.87 (10)
O6—C9—C8121.33 (10)N1—C2—H2A109.2
O5—C9—C8112.75 (9)C3—C2—H2A109.2
C6—O2—H2109.5N1—C2—H2B109.2
O1—C6—O2125.63 (11)C3—C2—H2B109.2
O1—C6—C7122.46 (10)H2A—C2—H2B107.9
O2—C6—C7111.90 (9)N2—C3—C2109.40 (10)
O4—C7—O3127.31 (10)N2—C3—H3A109.8
O4—C7—C6117.67 (9)C2—C3—H3A109.8
O3—C7—C6115.01 (9)N2—C3—H3B109.8
C2—N1—C5110.32 (9)C2—C3—H3B109.8
C2—N1—C1109.73 (11)H3A—C3—H3B108.2
C5—N1—C1110.72 (11)N2—C4—C5110.04 (10)
C2—N1—H1108.7N2—C4—H4A109.7
C5—N1—H1108.7C5—C4—H4A109.7
C1—N1—H1108.7N2—C4—H4B109.7
C3—N2—C4110.41 (9)C5—C4—H4B109.7
C3—N2—H2C109.6H4A—C4—H4B108.2
C4—N2—H2C109.6N1—C5—C4110.90 (10)
C3—N2—H2D109.6N1—C5—H5A109.5
C4—N2—H2D109.6C4—C5—H5A109.5
H2C—N2—H2D108.1N1—C5—H5B109.5
N1—C1—H1A109.5C4—C5—H5B109.5
N1—C1—H1B109.5H5A—C5—H5B108.0
D—H···AD—HH···AD···AD—H···A
O2—H2···O3i0.821.722.5242 (17)167
O5—H5···O8ii0.821.742.5467 (16)169
N1—H1···O40.911.922.7452 (15)151
N1—H1···O20.912.272.9085 (13)127
N2—H2C···O8iii0.902.032.8080 (14)144
N2—H2C···O6iii0.902.513.2564 (19)141
N2—H2D···O7iv0.901.932.7633 (16)154
N2—H2D···O5iv0.902.322.9243 (13)125
C1—H1B···O3v0.962.453.2653 (19)142
C2—H2A···O4i0.972.443.3533 (18)157
C3—H3A···O6vi0.972.493.4334 (18)163
C3—H3B···O8ii0.972.293.2319 (15)164
C4—H4B···O7vii0.972.433.3665 (18)163
C5—H5A···O3viii0.972.283.2269 (16)165
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O2—H2⋯O3i 0.821.722.5242 (17)167
O5—H5⋯O8ii 0.821.742.5467 (16)169
N1—H1⋯O40.911.922.7452 (15)151
N1—H1⋯O20.912.272.9085 (13)127
N2—H2C⋯O8iii 0.902.032.8080 (14)144
N2—H2C⋯O6iii 0.902.513.2564 (19)141
N2—H2D⋯O7iv 0.901.932.7633 (16)154
N2—H2D⋯O5iv 0.902.322.9243 (13)125
C1—H1B⋯O3v 0.962.453.2653 (19)142
C2—H2A⋯O4i 0.972.443.3533 (18)157
C3—H3A⋯O6vi 0.972.493.4334 (18)163
C3—H3B⋯O8ii 0.972.293.2319 (15)164
C4—H4B⋯O7vii 0.972.433.3665 (18)163
C5—H5A⋯O3viii 0.972.283.2269 (16)165

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) ; (viii) .

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