Literature DB >> 22199929

Bis[2-(4-amino-phen-yl)-4,5-dihydro-1H-imidazol-3-ium] dichloride monohydrate.

Krešimir Molčanov, Ivana Stolić, Biserka Kojić-Prodić, Miroslav Bajić.   

Abstract

The asymmetric unit of the title compound, 2C(9)H(12)N(3) (+)·2Cl(-)·H(2)O, comprises two mol-ecules, two n class="Chemical">chloride anions and one mol-ecule of crystal water. In the imidazolinium ring, the protonation contributes to delocalization of the positive charge over the two C-N bonds. Both chloride anions are acceptors of four hydrogen bonds in a flattened tetra-hedron environment. The donors are NH(2) groups, the NH groups of the imidazolinium rings and the water mol-ecule. These hydrogen bonds and N-H⋯O(H(2)O) hydrogen bonds form a three-dimensional network.

Entities:  

Year:  2011        PMID: 22199929      PMCID: PMC3239081          DOI: 10.1107/S1600536811050070

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


Related literature

For background and the biological activity of aromatic amidines, see: Chen et al. (2010 ▶); Hu et al. (2009 ▶); Del Poeta et al. (1998 ▶); Baraldi et al. (2004 ▶); Jarak et al. (2011 ▶); n class="Chemical">Neidle (2001 ▶); Stolić et al. (2011 ▶). For the synthesis, see Widra et al. (1990 ▶). For related compounds see: Jarak et al. (2005 ▶); Legrand et al. (2008 ▶). For puckering parameters, see: Cremer & Pople (1975 ▶);

Experimental

Crystal data

2C9H12N3 +·2Cl−·n class="Chemical">H2O M = 413.35 Orthorhombic, a = 10.5307 (2) Å b = 17.9659 (4) Å c = 22.4290 (5) Å V = 4243.42 (16) Å3 Z = 8 Cu Kα radiation μ = 2.91 mm−1 T = 293 K 0.4 × 0.05 × 0.04 mm

Data collection

Oxford Xcalibur Nova R Ruby diffractometer Absorption correction: multi-scan (ABSPACK; Oxford Diffraction, 2010 ▶) T min = 0.389, T max = 0.892 13695 measured reflections 4375 independent reflections 3054 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.045 wR(F 2) = 0.116 S = 1.00 4375 reflections 348 parameters 3 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.24 e Å−3 Δρmin = −0.13 e Å−3 Data collection: CrysAlis PRO (Oxford Diffraction, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811050070/bq2316sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811050070/bq2316Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811050070/bq2316Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
2C9H12N3+·2Cl·H2OF(000) = 1744
Mr = 413.35Dx = 1.294 Mg m3
Orthorhombic, PbcaCu Kα radiation, λ = 1.54184 Å
Hall symbol: -P 2ac 2abCell parameters from 4375 reflections
a = 10.5307 (2) Åθ = 3.2–76.0°
b = 17.9659 (4) ŵ = 2.91 mm1
c = 22.4290 (5) ÅT = 293 K
V = 4243.42 (16) Å3Prism, colourless
Z = 80.4 × 0.05 × 0.04 mm
Oxford Xcalibur Nova R Ruby diffractometer3054 reflections with I > 2σ(I)
CCD detector, ω scansRint = 0.030
Absorption correction: multi-scan (ABSPACK; Oxford Diffraction, 2010)θmax = 76.2°, θmin = 3.9°
Tmin = 0.389, Tmax = 0.892h = −10→13
13695 measured reflectionsk = −22→18
4375 independent reflectionsl = −12→27
Refinement on F23 restraints
Least-squares matrix: fullH atoms treated by a mixture of independent and constrained refinement
R[F2 > 2σ(F2)] = 0.045w = 1/[σ2(Fo2) + (0.0664P)2 + 0.1666P] where P = (Fo2 + 2Fc2)/3
wR(F2) = 0.116(Δ/σ)max < 0.001
S = 1.00Δρmax = 0.24 e Å3
4375 reflectionsΔρmin = −0.13 e Å3
348 parameters
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.
xyzUiso*/Ueq
C1A0.15472 (18)0.24466 (12)0.46353 (9)0.0591 (4)
C2A0.2329 (2)0.20468 (13)0.50240 (9)0.0677 (5)
H2A0.27990.16470.4880.081*
C3A0.2413 (2)0.22367 (13)0.56166 (9)0.0649 (5)
H3A0.29470.19660.58660.078*
C4A0.17150 (17)0.28251 (10)0.58513 (8)0.0529 (4)
C5A0.09206 (18)0.32174 (11)0.54635 (9)0.0590 (4)
H5A0.04340.36090.5610.071*
C6A0.08469 (19)0.30346 (12)0.48693 (9)0.0630 (5)
H6A0.0320.33090.46190.076*
C7A0.17897 (17)0.30141 (10)0.64793 (8)0.0536 (4)
C8A0.2419 (2)0.29987 (16)0.74592 (10)0.0797 (6)
H8110.31750.32380.76160.096*
H8120.21770.25940.77220.096*
C9A0.1344 (2)0.35524 (14)0.73860 (10)0.0759 (6)
H9110.06250.34230.76360.091*
H9120.16180.40540.74810.091*
N1A0.1465 (2)0.22627 (13)0.40482 (8)0.0825 (6)
H110.09740.25110.38150.099*
H120.19040.18980.3910.099*
N2A0.26224 (17)0.27362 (11)0.68540 (8)0.0705 (5)
H2C0.32180.24340.67530.085*
N3A0.10317 (17)0.34793 (10)0.67552 (8)0.0671 (4)
H3C0.04210.37140.65840.081*
C1B0.7185 (2)0.49540 (12)0.38839 (10)0.0699 (5)
C2B0.7994 (2)0.48300 (13)0.43669 (11)0.0726 (6)
H2B0.87180.45420.43140.087*
C3B0.7741 (2)0.51242 (13)0.49165 (10)0.0677 (5)
H3B0.82880.50240.52320.081*
C4B0.66745 (19)0.55730 (11)0.50120 (9)0.0597 (4)
C5B0.5881 (2)0.57082 (13)0.45265 (11)0.0679 (5)
H5B0.51710.6010.45770.082*
C6B0.6124 (2)0.54067 (14)0.39764 (11)0.0738 (6)
H6B0.55760.55050.36610.089*
C7B0.64277 (17)0.58804 (11)0.55951 (10)0.0593 (5)
C8B0.6543 (2)0.60604 (14)0.66131 (11)0.0752 (6)
H8210.72380.6320.68070.09*
H8220.61430.57280.68970.09*
C9B0.5585 (2)0.66057 (15)0.63481 (12)0.0809 (7)
H9210.47440.65270.65120.097*
H9220.58390.71170.64190.097*
N1B0.7415 (2)0.46400 (14)0.33459 (10)0.0947 (7)
H210.80670.43590.32980.114*
H220.69080.47220.30530.114*
N2B0.69789 (18)0.56590 (11)0.60876 (8)0.0702 (5)
H2D0.75410.53120.60990.084*
N3B0.56234 (18)0.64252 (11)0.57148 (9)0.0762 (5)
H3D0.51740.66480.54490.091*
Cl10.33702 (5)0.08741 (3)0.36842 (2)0.06847 (16)
Cl20.48675 (5)0.16106 (3)0.68365 (3)0.08017 (19)
O10.4366 (2)0.99224 (11)0.26032 (8)0.0905 (5)
H1A0.461 (3)0.9475 (12)0.2776 (14)0.136*
H1B0.396 (3)1.0191 (15)0.2913 (12)0.136*
U11U22U33U12U13U23
C1A0.0660 (10)0.0683 (11)0.0431 (10)−0.0008 (9)0.0021 (9)0.0024 (9)
C2A0.0789 (12)0.0720 (13)0.0522 (12)0.0194 (10)0.0007 (10)−0.0040 (10)
C3A0.0728 (11)0.0716 (12)0.0503 (11)0.0160 (10)−0.0065 (9)−0.0001 (9)
C4A0.0563 (9)0.0563 (10)0.0461 (10)−0.0010 (8)0.0003 (8)0.0006 (8)
C5A0.0666 (10)0.0577 (10)0.0527 (11)0.0084 (9)0.0027 (9)0.0007 (8)
C6A0.0677 (10)0.0707 (12)0.0506 (11)0.0092 (10)−0.0040 (9)0.0071 (9)
C7A0.0588 (9)0.0527 (9)0.0492 (10)−0.0024 (8)−0.0012 (8)0.0008 (8)
C8A0.0945 (15)0.0948 (17)0.0499 (12)0.0214 (13)−0.0123 (11)−0.0105 (11)
C9A0.0898 (14)0.0868 (15)0.0511 (12)0.0187 (13)−0.0059 (11)−0.0109 (11)
N1A0.1041 (14)0.0982 (15)0.0453 (10)0.0272 (12)−0.0067 (10)−0.0056 (9)
N2A0.0768 (10)0.0855 (12)0.0491 (10)0.0234 (9)−0.0076 (8)−0.0075 (8)
N3A0.0762 (10)0.0756 (11)0.0496 (10)0.0201 (9)−0.0077 (8)−0.0088 (8)
C1B0.0866 (13)0.0648 (12)0.0582 (12)−0.0045 (11)0.0046 (11)0.0040 (10)
C2B0.0807 (13)0.0690 (13)0.0682 (14)0.0124 (11)0.0058 (11)0.0054 (11)
C3B0.0758 (12)0.0672 (12)0.0601 (13)0.0098 (10)−0.0006 (10)0.0069 (10)
C4B0.0647 (10)0.0540 (10)0.0606 (12)−0.0013 (9)0.0017 (9)0.0084 (9)
C5B0.0686 (11)0.0669 (12)0.0684 (14)0.0044 (10)−0.0027 (10)0.0054 (10)
C6B0.0821 (13)0.0794 (15)0.0600 (13)−0.0002 (12)−0.0092 (11)0.0080 (11)
C7B0.0587 (9)0.0559 (10)0.0634 (12)0.0002 (8)0.0003 (9)0.0057 (9)
C8B0.0797 (13)0.0808 (15)0.0652 (14)0.0153 (12)0.0023 (11)−0.0055 (11)
C9B0.0854 (14)0.0821 (15)0.0753 (16)0.0220 (13)0.0018 (13)−0.0069 (12)
N1B0.1131 (15)0.1059 (17)0.0651 (13)0.0179 (14)−0.0007 (12)−0.0067 (12)
N2B0.0787 (10)0.0727 (11)0.0592 (10)0.0204 (9)−0.0019 (9)−0.0008 (8)
N3B0.0819 (11)0.0759 (11)0.0707 (12)0.0247 (10)−0.0048 (10)0.0015 (9)
Cl10.0833 (3)0.0644 (3)0.0577 (3)−0.0134 (2)0.0066 (2)−0.0012 (2)
Cl20.0760 (3)0.0766 (3)0.0879 (4)0.0119 (3)0.0061 (3)0.0194 (3)
O10.1249 (14)0.0828 (11)0.0637 (10)0.0098 (11)0.0000 (10)0.0030 (8)
C1A—N1A1.360 (3)C1B—C2B1.396 (3)
C1A—C6A1.391 (3)C1B—C6B1.397 (3)
C1A—C2A1.398 (3)C2B—C3B1.367 (3)
C2A—C3A1.375 (3)C2B—H2B0.93
C2A—H2A0.93C3B—C4B1.399 (3)
C3A—C4A1.391 (3)C3B—H3B0.93
C3A—H3A0.93C4B—C5B1.394 (3)
C4A—C5A1.398 (3)C4B—C7B1.443 (3)
C4A—C7A1.451 (3)C5B—C6B1.372 (3)
C5A—C6A1.375 (3)C5B—H5B0.93
C5A—H5A0.93C6B—H6B0.93
C6A—H6A0.93C7B—N2B1.310 (3)
C7A—N3A1.311 (2)C7B—N3B1.322 (3)
C7A—N2A1.313 (2)C8B—N2B1.456 (3)
C8A—N2A1.453 (3)C8B—C9B1.527 (3)
C8A—C9A1.516 (3)C8B—H8210.97
C8A—H8110.97C8B—H8220.97
C8A—H8120.97C9B—N3B1.458 (3)
C9A—N3A1.458 (3)C9B—H9210.97
C9A—H9110.97C9B—H9220.97
C9A—H9120.97N1B—H210.86
N1A—H110.86N1B—H220.86
N1A—H120.86N2B—H2D0.86
N2A—H2C0.86N3B—H3D0.86
N3A—H3C0.86O1—H1A0.928 (17)
C1B—N1B1.354 (3)O1—H1B0.947 (17)
N1A—C1A—C6A121.06 (19)N1B—C1B—C6B121.2 (2)
N1A—C1A—C2A121.1 (2)C2B—C1B—C6B117.7 (2)
C6A—C1A—C2A117.84 (19)C3B—C2B—C1B121.3 (2)
C3A—C2A—C1A120.9 (2)C3B—C2B—H2B119.4
C3A—C2A—H2A119.6C1B—C2B—H2B119.4
C1A—C2A—H2A119.6C2B—C3B—C4B121.1 (2)
C2A—C3A—C4A121.37 (19)C2B—C3B—H3B119.4
C2A—C3A—H3A119.3C4B—C3B—H3B119.4
C4A—C3A—H3A119.3C5B—C4B—C3B117.5 (2)
C3A—C4A—C5A117.64 (18)C5B—C4B—C7B122.24 (19)
C3A—C4A—C7A121.11 (17)C3B—C4B—C7B120.26 (19)
C5A—C4A—C7A121.23 (17)C6B—C5B—C4B121.5 (2)
C6A—C5A—C4A121.10 (19)C6B—C5B—H5B119.3
C6A—C5A—H5A119.4C4B—C5B—H5B119.3
C4A—C5A—H5A119.4C5B—C6B—C1B120.8 (2)
C5A—C6A—C1A121.15 (19)C5B—C6B—H6B119.6
C5A—C6A—H6A119.4C1B—C6B—H6B119.6
C1A—C6A—H6A119.4N2B—C7B—N3B109.7 (2)
N3A—C7A—N2A110.29 (18)N2B—C7B—C4B124.63 (18)
N3A—C7A—C4A125.06 (17)N3B—C7B—C4B125.64 (19)
N2A—C7A—C4A124.64 (18)N2B—C8B—C9B102.17 (19)
N2A—C8A—C9A102.81 (17)N2B—C8B—H821111.3
N2A—C8A—H811111.2C9B—C8B—H821111.3
C9A—C8A—H811111.2N2B—C8B—H822111.3
N2A—C8A—H812111.2C9B—C8B—H822111.3
C9A—C8A—H812111.2H821—C8B—H822109.2
H811—C8A—H812109.1N3B—C9B—C8B102.61 (18)
N3A—C9A—C8A102.38 (17)N3B—C9B—H921111.2
N3A—C9A—H911111.3C8B—C9B—H921111.2
C8A—C9A—H911111.3N3B—C9B—H922111.2
N3A—C9A—H912111.3C8B—C9B—H922111.2
C8A—C9A—H912111.3H921—C9B—H922109.2
H911—C9A—H912109.2C1B—N1B—H21120
C1A—N1A—H11120C1B—N1B—H22120
C1A—N1A—H12120H21—N1B—H22120
H11—N1A—H12120C7B—N2B—C8B113.13 (18)
C7A—N2A—C8A112.10 (18)C7B—N2B—H2D123.4
C7A—N2A—H2C124C8B—N2B—H2D123.4
C8A—N2A—H2C124C7B—N3B—C9B112.36 (19)
C7A—N3A—C9A112.22 (17)C7B—N3B—H3D123.8
C7A—N3A—H3C123.9C9B—N3B—H3D123.8
C9A—N3A—H3C123.9H1A—O1—H1B105 (2)
N1B—C1B—C2B121.1 (2)
N1A—C1A—C2A—C3A179.7 (2)N1B—C1B—C2B—C3B−177.6 (2)
C6A—C1A—C2A—C3A−0.8 (3)C6B—C1B—C2B—C3B1.7 (4)
C1A—C2A—C3A—C4A0.7 (4)C1B—C2B—C3B—C4B−1.3 (4)
C2A—C3A—C4A—C5A0.1 (3)C2B—C3B—C4B—C5B0.0 (3)
C2A—C3A—C4A—C7A178.9 (2)C2B—C3B—C4B—C7B−179.8 (2)
C3A—C4A—C5A—C6A−0.9 (3)C3B—C4B—C5B—C6B0.8 (3)
C7A—C4A—C5A—C6A−179.66 (19)C7B—C4B—C5B—C6B−179.5 (2)
C4A—C5A—C6A—C1A0.9 (3)C4B—C5B—C6B—C1B−0.3 (4)
N1A—C1A—C6A—C5A179.4 (2)N1B—C1B—C6B—C5B178.4 (2)
C2A—C1A—C6A—C5A0.0 (3)C2B—C1B—C6B—C5B−0.9 (3)
C3A—C4A—C7A—N3A−169.1 (2)C5B—C4B—C7B—N2B165.7 (2)
C5A—C4A—C7A—N3A9.6 (3)C3B—C4B—C7B—N2B−14.6 (3)
C3A—C4A—C7A—N2A10.2 (3)C5B—C4B—C7B—N3B−14.6 (3)
C5A—C4A—C7A—N2A−171.1 (2)C3B—C4B—C7B—N3B165.2 (2)
N2A—C8A—C9A—N3A4.1 (3)N2B—C8B—C9B—N3B0.3 (3)
N3A—C7A—N2A—C8A2.6 (3)N3B—C7B—N2B—C8B0.8 (3)
C4A—C7A—N2A—C8A−176.8 (2)C4B—C7B—N2B—C8B−179.5 (2)
C9A—C8A—N2A—C7A−4.3 (3)C9B—C8B—N2B—C7B−0.7 (3)
N2A—C7A—N3A—C9A0.5 (3)N2B—C7B—N3B—C9B−0.6 (3)
C4A—C7A—N3A—C9A179.9 (2)C4B—C7B—N3B—C9B179.7 (2)
C8A—C9A—N3A—C7A−3.1 (3)C8B—C9B—N3B—C7B0.1 (3)
D—H···AD—HH···AD···AD—H···A
N1A—H11···Cl2i0.862.453.296 (2)170.
N1A—H12···Cl10.862.453.304 (2)170.
N1B—H21···Cl2ii0.862.593.448 (2)174.
N1B—H22···O1iii0.862.022.882 (3)177.
N2A—H2C···Cl20.862.293.1113 (18)160
N2B—H2D···Cl1ii0.862.353.1615 (19)157.
N3A—H3C···Cl1i0.862.363.1900 (17)162.
O1—H1A···Cl2iv0.93 (2)2.21 (2)3.1329 (19)178 (3)
O1—H1B···Cl1v0.95 (2)2.21 (2)3.147 (2)170 (3)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1A—H11⋯Cl2i0.862.453.296 (2)170
N1A—H12⋯Cl10.862.453.304 (2)170
N1B—H21⋯Cl2ii0.862.593.448 (2)174
N1B—H22⋯O1iii0.862.022.882 (3)177
N2A—H2C⋯Cl20.862.293.1113 (18)160
N2B—H2D⋯Cl1ii0.862.353.1615 (19)157
N3A—H3C⋯Cl1i0.862.363.1900 (17)162
O1—H1A⋯Cl2iv0.93 (2)2.21 (2)3.1329 (19)178 (3)
O1—H1B⋯Cl1v0.95 (2)2.21 (2)3.147 (2)170 (3)

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

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Journal:  Eur J Med Chem       Date:  2011-04-15       Impact factor: 6.514

6.  4-Amino-N-isopropylbenzamidinium chloride ethanol solvate.

Authors:  Ivana Jarak; Grace Karminski-Zamola; Gordana Pavlović; Zora Popović
Journal:  Acta Crystallogr C       Date:  2005-01-22       Impact factor: 1.172

7.  4-Ammonio-benzamidinium dichloride.

Authors:  Y M Legrand; A van der Lee; M Barboiu
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-05-03

Review 8.  DNA minor groove binders as potential antitumor and antimicrobial agents.

Authors:  Pier Giovanni Baraldi; Andrea Bovero; Francesca Fruttarolo; Delia Preti; Mojgan Aghazadeh Tabrizi; Maria Giovanna Pavani; Romeo Romagnoli
Journal:  Med Res Rev       Date:  2004-07       Impact factor: 12.944

9.  Synthesis and structure-activity relationship of dicationic diaryl ethers as novel potent anti-MRSA and anti-VRE agents.

Authors:  Laixing Hu; Maureen L Kully; David W Boykin; Norman Abood
Journal:  Bioorg Med Chem Lett       Date:  2009-06-25       Impact factor: 2.823

10.  Structure-in vitro activity relationships of pentamidine analogues and dication-substituted bis-benzimidazoles as new antifungal agents.

Authors:  M Del Poeta; W A Schell; C C Dykstra; S Jones; R R Tidwell; A Czarny; M Bajic; A Kumar; D Boykin; J R Perfect
Journal:  Antimicrob Agents Chemother       Date:  1998-10       Impact factor: 5.191

  10 in total
  1 in total

1.  2-(4-Amino-phen-yl)-3,4,5,6-tetra-hydro-pyrimidin-1-ium chloride.

Authors:  Krešimir Molčanov; Ivana Stolić; Biserka Kojić-Prodić; Goran Kovačević; Miroslav Bajić
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-04-13
  1 in total

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