Literature DB >> 21589482

2-Phenyl-biguanidinium hydrogen succinate methanol monosolvate.

Irena Matulková, Ivana Císařová, Ivan Němec.   

Abstract

In the crystal of the title compound, C(8)H(12)N(5) (+)·C(4)H(5)O(4) (-)·CH(3)OH, the hydrogen succinate anions form infinite [010] chains via short, almost symmetrical, O⋯H⋯O hydrogen bonds. The 2-phenyl-biguanidium cations inter-connect these chains into layers lying parallel to the bc plane by way of N-H⋯O links. These planes only weakly inter-act in the direction of the a axis via C-H⋯π contacts between offset phenyl rings, leaving as much as 17% of the unit-cell volume accessible for the solvent. However, the methanol solvent mol-ecules could not be resolved due to extensive disorder and their assumed presence was removed from the overall scattering by the PLATON SQUEEZE procedure.

Entities:  

Year:  2010        PMID: 21589482      PMCID: PMC3011512          DOI: 10.1107/S160053681004585X

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


Related literature

Biguanides forms stable complexes, see: Marchi et al. (1999 ▶); Ray (1961 ▶); Anderson et al. (1995 ▶) and also have applications in medicine, see: Sirtori & Pasik (1994 ▶); Clement & Girreser (1999 ▶); Thompson et al. (1999 ▶); Ross et al. (2004 ▶); Woo et al. (1999 ▶); Watkins et al. (1987 ▶); Morain et al. (1994 ▶); Shapiro et al. (1959a ▶,b ▶). Ionic crystal structures containing biguanide cations are formed by relatively strong hydrogen bonds, see: Martin et al. (1996 ▶); Martin & Pinkerton (1996 ▶); Pinkerton et al. (1978 ▶); Matulková et al. (2008 ▶, 2010 ▶). For the SQUEEZE method used to solve the structure, see: van der Sluis & Spek (1990 ▶).

Experimental

Crystal data

C8H12N5 +·C4H5O4 −·CH4O M = 327.35 Monoclinic, a = 10.3280 (3) Å b = 6.4590 (1) Å c = 24.6770 (6) Å β = 94.0480 (13)° V = 1642.06 (7) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 293 K 0.45 × 0.4 × 0.18 mm

Data collection

Nonius KappaCCD diffractometer 18123 measured reflections 3568 independent reflections 2613 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.056 wR(F 2) = 0.174 S = 1.07 3568 reflections 191 parameters H-atom parameters constrained Δρmax = 0.25 e Å−3 Δρmin = −0.23 e Å−3 Data collection: COLLECT (Hooft, 1998 ▶) and DENZO (Otwinowski & Minor, 1997 ▶); cell refinement: COLLECT and DENZO; data reduction: COLLECT and DENZO; program(s) used to solve structure: SIR92 (Altomare et al., 1994 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008) ▶; molecular graphics: PLATON (Spek, 2009) ▶; software used to prepare material for publication: SHELXL97 ▶. Crystal structure: contains datablocks global, I. DOI: 10.1107/S160053681004585X/hb5725sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S160053681004585X/hb5725Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C8H12N5+·C4H5O4·CH4OF(000) = 696
Mr = 327.35Dx = 1.324 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3693 reflections
a = 10.3280 (3) Åθ = 1–27.1°
b = 6.4590 (1) ŵ = 0.10 mm1
c = 24.6770 (6) ÅT = 293 K
β = 94.0480 (13)°Plate, colourless
V = 1642.06 (7) Å30.45 × 0.4 × 0.18 mm
Z = 4
Nonius KappaCCD diffractometer2613 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.030
horizontally mounted graphite crystalθmax = 27.1°, θmin = 1.7°
Detector resolution: 9.091 pixels mm-1h = −13→13
ω and π scans to fill the Ewald spherek = −8→8
18123 measured reflectionsl = −31→31
3568 independent reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.056H-atom parameters constrained
wR(F2) = 0.174w = 1/[σ2(Fo2) + (0.1087P)2 + 0.1338P] where P = (Fo2 + 2Fc2)/3
S = 1.07(Δ/σ)max = 0.001
3568 reflectionsΔρmax = 0.25 e Å3
191 parametersΔρmin = −0.23 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 1997), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.055 (7)
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
N10.20697 (15)−0.1226 (2)0.77926 (5)0.0515 (4)
H10.1757−0.14680.74350.062*
N20.07708 (16)−0.3948 (2)0.79668 (5)0.0570 (4)
H2A0.0599−0.41060.76200.068*
H2B0.0280−0.46300.82080.068*
N30.18707 (15)−0.2116 (2)0.86872 (5)0.0514 (4)
N40.16449 (16)−0.2862 (2)0.95713 (5)0.0537 (4)
H4A0.1524−0.14530.96250.064*
H4B0.1638−0.37850.98740.064*
N50.18754 (16)−0.5585 (2)0.90047 (5)0.0575 (4)
H5A0.2005−0.60750.87020.069*
H5B0.1909−0.64670.92880.069*
C10.15804 (17)−0.2481 (2)0.81647 (6)0.0464 (4)
C20.17836 (16)−0.3547 (2)0.90737 (6)0.0448 (4)
O1−0.16551 (14)−0.15632 (17)1.00242 (4)0.0577 (4)
O2−0.16362 (15)−0.43722 (16)0.95237 (5)0.0616 (4)
H2−0.1523−0.49610.90680.074*
O3−0.10001 (17)0.1366 (2)0.81889 (5)0.0738 (5)
O4−0.13315 (14)0.42420 (17)0.86173 (4)0.0598 (4)
C30.29311 (18)0.0463 (2)0.78891 (6)0.0519 (4)
C40.3920 (2)0.0464 (3)0.82884 (8)0.0687 (6)
H40.4044−0.06630.85210.082*
C50.4738 (3)0.2177 (5)0.83414 (11)0.0929 (9)
H50.54070.21910.86140.112*
C60.4578 (3)0.3832 (4)0.80008 (14)0.0964 (10)
H60.51300.49670.80420.116*
C70.3612 (3)0.3805 (4)0.76041 (14)0.0911 (9)
H70.35080.49280.73690.109*
C80.2768 (2)0.2135 (3)0.75394 (9)0.0694 (6)
H80.21030.21390.72650.083*
C9−0.16134 (17)−0.2385 (2)0.95785 (6)0.0464 (4)
C10−0.15527 (19)−0.1185 (2)0.90552 (6)0.0488 (4)
H10A−0.0830−0.17010.88640.059*
H10B−0.2341−0.14470.88280.059*
C11−0.13977 (19)0.1122 (2)0.91303 (6)0.0462 (4)
H11A−0.21550.16630.92930.055*
H11B−0.06470.13870.93790.055*
C12−0.12325 (17)0.2254 (2)0.86057 (6)0.0462 (4)
U11U22U33U12U13U23
N10.0785 (10)0.0498 (8)0.0273 (6)−0.0067 (6)0.0109 (6)0.0028 (5)
N20.0825 (11)0.0601 (9)0.0291 (7)−0.0165 (7)0.0088 (6)−0.0007 (6)
N30.0828 (10)0.0438 (7)0.0288 (7)−0.0077 (7)0.0109 (6)0.0018 (5)
N40.0905 (11)0.0458 (8)0.0258 (6)−0.0013 (7)0.0104 (6)0.0035 (5)
N50.0926 (12)0.0439 (8)0.0368 (7)0.0057 (7)0.0099 (7)0.0031 (6)
C10.0672 (10)0.0430 (8)0.0302 (7)0.0002 (7)0.0121 (7)0.0014 (6)
C20.0593 (10)0.0457 (8)0.0300 (7)−0.0025 (7)0.0065 (6)0.0021 (6)
O10.1019 (10)0.0397 (6)0.0324 (6)−0.0008 (6)0.0104 (6)0.0029 (4)
O20.1145 (11)0.0315 (6)0.0402 (6)−0.0014 (6)0.0168 (6)0.0058 (4)
O30.1439 (14)0.0514 (7)0.0279 (6)−0.0011 (7)0.0179 (7)0.0000 (5)
O40.1054 (10)0.0345 (6)0.0410 (6)−0.0023 (6)0.0155 (6)0.0084 (4)
C30.0733 (11)0.0461 (9)0.0391 (8)−0.0031 (8)0.0240 (8)−0.0013 (6)
C40.0815 (14)0.0792 (14)0.0468 (10)−0.0154 (10)0.0140 (10)0.0015 (9)
C50.0854 (16)0.119 (2)0.0775 (16)−0.0400 (15)0.0293 (13)−0.0254 (15)
C60.105 (2)0.0770 (16)0.114 (2)−0.0389 (14)0.0597 (19)−0.0213 (15)
C70.110 (2)0.0545 (12)0.116 (2)−0.0070 (12)0.0548 (19)0.0143 (13)
C80.0849 (14)0.0561 (11)0.0711 (13)0.0021 (9)0.0319 (11)0.0170 (9)
C90.0715 (11)0.0329 (7)0.0357 (8)0.0001 (7)0.0097 (7)0.0041 (6)
C100.0817 (12)0.0329 (8)0.0325 (7)−0.0001 (7)0.0086 (7)0.0027 (5)
C110.0779 (11)0.0335 (7)0.0281 (7)−0.0031 (7)0.0087 (7)0.0026 (5)
C120.0741 (11)0.0366 (8)0.0281 (7)−0.0040 (7)0.0050 (7)0.0029 (5)
N1—C11.3495 (19)C3—C41.368 (3)
N1—C31.417 (2)C3—C81.385 (2)
N1—H10.9313C4—C51.393 (3)
N2—C11.333 (2)C4—H40.9300
N2—H2A0.8679C5—C61.363 (4)
N2—H2B0.9206C5—H50.9300
N3—C11.3242 (19)C6—C71.348 (5)
N3—C21.3358 (19)C6—H60.9300
N4—C21.3223 (18)C7—C81.389 (4)
N4—H4A0.9291C7—H70.9300
N4—H4B0.9561C8—H80.9300
N5—C21.331 (2)C9—C101.511 (2)
N5—H5A0.8301C10—C111.509 (2)
N5—H5B0.9016C10—H10A0.9700
O1—C91.2245 (18)C10—H10B0.9700
O2—C91.2909 (19)C11—C121.5069 (19)
O2—H21.2016C11—H11A0.9700
O3—C121.2164 (18)C11—H11B0.9700
O4—C121.2884 (19)
C1—N1—C3127.49 (14)C4—C5—H5119.4
C1—N1—H1115.0C7—C6—C5119.3 (2)
C3—N1—H1117.4C7—C6—H6120.3
C1—N2—H2A121.6C5—C6—H6120.3
C1—N2—H2B117.6C6—C7—C8121.3 (2)
H2A—N2—H2B119.8C6—C7—H7119.4
C1—N3—C2123.36 (14)C8—C7—H7119.4
C2—N4—H4A119.0C3—C8—C7119.1 (2)
C2—N4—H4B121.6C3—C8—H8120.4
H4A—N4—H4B119.4C7—C8—H8120.4
C2—N5—H5A120.7O1—C9—O2121.57 (13)
C2—N5—H5B121.7O1—C9—C10123.48 (13)
H5A—N5—H5B117.2O2—C9—C10114.95 (13)
N3—C1—N2125.19 (14)C11—C10—C9114.32 (12)
N3—C1—N1119.06 (15)C11—C10—H10A108.7
N2—C1—N1115.64 (14)C9—C10—H10A108.7
N4—C2—N5117.58 (14)C11—C10—H10B108.7
N4—C2—N3116.65 (14)C9—C10—H10B108.7
N5—C2—N3125.71 (13)H10A—C10—H10B107.6
C9—O2—H2114.2C12—C11—C10113.04 (12)
C4—C3—C8119.99 (19)C12—C11—H11A109.0
C4—C3—N1123.32 (16)C10—C11—H11A109.0
C8—C3—N1116.63 (18)C12—C11—H11B109.0
C3—C4—C5119.0 (2)C10—C11—H11B109.0
C3—C4—H4120.5H11A—C11—H11B107.8
C5—C4—H4120.5O3—C12—O4120.62 (13)
C6—C5—C4121.2 (3)O3—C12—C11122.59 (14)
C6—C5—H5119.4O4—C12—C11116.78 (12)
Cg1 is the centroidof the C3–C8 ring.
D—H···AD—HH···AD···AD—H···A
N1—H1···O3i0.932.183.021 (2)149
N1—H1···O4i0.932.643.5217 (17)158
N2—H2A···O3i0.872.092.8855 (17)152
N2—H2B···O4ii0.922.143.0248 (19)162
N4—H4A···O1iii0.932.133.0273 (18)161
N4—H4B···O2iv0.961.902.8605 (16)180
N5—H5B···O1iv0.902.153.0440 (17)170
O2—H2···O4ii1.201.252.4500 (16)173
C6—H6···Cg1v0.933.103.676 (2)122
Table 1

Hydrogen-bond geometry (Å, °)

Cg1 is the centroidof the C3–C8 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O3i0.932.183.021 (2)149
N1—H1⋯O4i0.932.643.5217 (17)158
N2—H2A⋯O3i0.872.092.8855 (17)152
N2—H2B⋯O4ii0.922.143.0248 (19)162
N4—H4A⋯O1iii0.932.133.0273 (18)161
N4—H4B⋯O2iv0.961.902.8605 (16)180
N5—H5B⋯O1iv0.902.153.0440 (17)170
O2—H2⋯O4ii1.201.252.4500 (16)173
C6—H6⋯Cg1v0.933.103.676 (2)122

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

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