Home Crystal structure of catena-poly[(μ2-pentane-1,5-dicarboxylato-κ2O:O′)-(μ2-2-[(1H-imidazol-1-yl)methyl]-6-methyl-1H-benzimidazole-κ2N:N′)zinc(II)] sesquihydrate, C17H21N4O5.5Zn
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Crystal structure of catena-poly[(μ2-pentane-1,5-dicarboxylato-κ2O:O′)-(μ2-2-[(1H-imidazol-1-yl)methyl]-6-methyl-1H-benzimidazole-κ2N:N′)zinc(II)] sesquihydrate, C17H21N4O5.5Zn

  • Yan-Ju Liu , Na Wang , Ya Liu , Fang-Rong Cheng EMAIL logo and Xiang-Ru Meng
Published/Copyright: September 29, 2018

Abstract

C17H21N4O5.5Zn, monoclinic, P21/c (no. 14), a = 9.4009(12) Å, b = 13.8160(18) Å, c = 15.1299(19) Å, β = 95.507(3)°, V = 1956.0(4) Å3, Z = 4, Rgt(F) = 0.0590, wRref(F2) = 0.1495, T = 298(2) K.

CCDC no.: 1863096

The crystal structure is shown in the figure. The heteroatoms of the asymmetric unit are labelled and hydrogen atoms of the coordination polymer are omitted for clarity. Tables 1 and 2 contain details on crystal structure and measurement conditions and a list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Light yellow block
Size:0.20 × 0.18 × 0.14 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:1.29 mm−1
Diffractometer, scan mode:Bruker D8 VENTURE, φ and ω-scans
θmax, completeness:25.5°, >99%
N(hkl)measured, N(hkl)unique, Rint:29097, 3640, 0.058
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 2977
N(param)refined:249
Programs:Bruker programs [1], SHELX [2, 3]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

AtomxyzUiso*/Ueq
Zn10.95762(6)0.31152(4)0.33876(4)0.0485(2)
N10.9320(4)0.4510(3)0.3719(2)0.0472(9)
N20.9897(4)0.5992(3)0.4123(2)0.0412(8)
N30.9953(4)0.7809(3)0.5590(3)0.0482(9)
N40.9317(4)0.8307(3)0.4223(3)0.0526(10)
H4A0.92600.83070.36520.063*
O10.6886(4)0.2847(3)0.3625(3)0.0673(11)
O20.8157(3)0.2504(3)0.2531(2)0.0667(11)
O30.2514(4)0.3405(4)0.3833(3)0.0813(13)
O40.1178(3)0.3095(3)0.2596(2)0.0530(9)
O50.4999(6)0.6651(6)0.5056(4)0.148(3)
H1W0.43970.68810.53840.222*
H2W0.58110.66050.53530.222*
O6c0.4070(13)0.5206(7)0.3968(8)0.120(4)
H3Wc0.36180.47010.37840.180*
H4Wc0.38330.55360.44040.180*
C10.6998(5)0.2468(4)0.2899(3)0.0534(12)
C20.5794(5)0.1908(4)0.2413(4)0.0603(14)
H2A0.60320.12250.24450.072*
H2B0.57200.20950.17930.072*
C30.4344(5)0.2049(4)0.2760(4)0.0580(14)
H3A0.44380.19550.33980.070*
H3B0.36870.15630.24990.070*
C40.3727(5)0.3052(4)0.2547(4)0.0595(14)
H4B0.34740.31110.19120.071*
H4C0.44360.35420.27250.071*
C50.2405(5)0.3205(4)0.3039(3)0.0531(12)
C61.0386(5)0.5132(4)0.3882(3)0.0468(11)
H6A1.13430.49900.38360.056*
C70.8090(5)0.5008(4)0.3865(3)0.0511(12)
H7A0.71700.47530.37980.061*
C80.8434(5)0.5922(4)0.4121(3)0.0510(12)
H8A0.78090.64060.42660.061*
C91.0829(5)0.6829(4)0.4361(3)0.0476(11)
H9A1.12470.70530.38360.057*
H9B1.16010.66280.47930.057*
C101.0036(5)0.7642(4)0.4736(3)0.0426(10)
C11a0.8722(15)0.8948(10)0.4688(7)0.066(3)
C12a0.7879(16)0.9767(10)0.4526(8)0.081(4)
H12Aa0.76400.99750.39460.097*
C13a0.7394(15)1.0276(8)0.5231(12)0.097(6)
H13Aa0.68301.08240.51220.117*
C14a0.7751(14)0.9966(9)0.6097(10)0.099(6)
C15a0.8594(14)0.9146(10)0.6259(7)0.098(5)
H15Aa0.88330.89380.68390.118*
C16a0.9080(13)0.8638(8)0.5555(7)0.056(3)
C17b0.685(3)1.057(2)0.6547(17)0.103(9)
H17A0.64741.10750.61540.154*
H17Bb0.60751.01970.67380.154*
H17Cb0.73851.08540.70540.154*
C11′b0.874(3)0.8937(16)0.4891(10)0.025(4)
C12′b0.786(3)0.9741(17)0.4763(9)0.037(5)
H12Bb0.75360.99360.41910.044*
C13′b0.747(2)1.0255(14)0.5490(12)0.030(4)
C14′b0.795(2)0.9964(14)0.6346(10)0.041(5)
H14Ab0.76861.03070.68320.049*
C15′b0.8835(18)0.9159(14)0.6474(9)0.021(3)
H15Bb0.91610.89640.70460.026*
C16′b0.923(2)0.8646(13)0.5746(12)0.022(4)
C17′a0.6452(10)1.1138(6)0.5299(7)0.077(3)
H17Da0.62451.12150.46690.115*
H17Ea0.55791.10310.55650.115*
H17Fa0.69081.17120.55450.115*
  1. Occupancies: a = 0.698(11), b = 0.302(11), c = 0.5.

Source of material

All reagents were purchased from commercial sources and used without further purification. A mixture of Zn(acetate)2 (0.05 mmol), pentane-1,5-dicarboxylic acid (H2glu, 0.05 mmol), 2-[(1H-imidazol-1-yl)methyl]-6-methyl-1H-benzimidazol (immb, 0.05 mmol), methanol (1 mL) and distilled water (4 mL) was sealed in a 25 mL Teflon-lined stainless steel container and heated at 393 K for 72 h. After the mixture cooled to room temperature at a rate of 5 K h−1, light yellow crystals of the title compound were obtained (yield 64%, based on Zn).

Experimental details

The methylbenzene moiety was modeled by splitting it into two parts (C11—C17 and C11′—C117′), the site-occupation factors of which refined in a ratio of 0.689(11):0.302(11). Only one orientation of the disordered methylbenzene group is shown in the Figure 1. Hydrogen atoms on carbon and nitrogen atoms were positioned geometrically and refined as riding atoms, with C—H = 0.93 Å (aromatic) or 0.96 Å (CH3) or 0.97 Å (CH2), and N—H = 0.86 Å. Water H atoms were found according to the residual electron-density peaks around each water O atom and the directions of hydrogen bonds, and were then locked in position and included with O—H = 0.85 Å. Hydrogen atoms were refined with Uiso(H) = 1.5Ueq(C,O) for methyl H atoms and water H atoms and 1.2Ueq(C,N) otherwise.

Figure 1: The structure of the title compound.
Figure 1:

The structure of the title compound.

Discussion

Careful choice of the organic ligands is one of the most important parameters in the rational design and synthesis of coordination polymers. Multidentate N-heterocyclic compounds containing imidazole or benzimidazole groups, like 2-[(1H-imidazol-1-yl)methyl]-1H-benzimidazole (imb) and 2-[(1H-imidazol-1-yl)methyl]-6-methyl-1H-benzimidazol (immb), have been used extensively as ligands for the construction of coordination polymers [4, 5] . Aliphatic dicarboxylic acids, like hexane-1,6-dicarboxylic acid (H2adi), pentane-1,5-dicarboxylic acid (H2glu) and butane-1,4-dicarboxylic acid (H2suc), have also been widely used in the preparation of coordination polymers since the corresponding double deprotonated anions have two carboxylate groups and have the great richness and variation of coordination modes which can generate unforeseen structure patterns and frameworks [6], [7], [8]. Meanwhile, the combination of N-heterocyclic and polycarboxylate ligands is an effective approach for the construction of numerous polymers based on these ligands [9], [10], [11]. In this work, by employing multidentate N-donor immb and O-donor glu2− as mixed ligands to react with Zn(acetate)2, we have successfully obtained a new coordination polymer {[Zn(glu)(immb)] ⋅ 1 ⋅ 5H2O}n.

The asymmetric unit of the title structure consists of one Zn(II) ion, one 2-[(1H-imidazol-1-yl)methyl]-6-methyl-1H-benzimidazol (immb) ligand, one pentane-1,5-dicarboxylate (glu2−) anion, and one and a half lattice water molecules. The Zn1 ion is located in an irregular ZnO3N2 coordination environment and is coordinated by three O atoms from two symmetry-related glu2− anionic ligands and two N atoms from two symmetry-related immb ligands. The Zn–N bond lengths are 2.012(4) and 2.021(4) Å, while the Zn–O bond lengths are in the range of 1.960(3)–2.615(3) Å, all of which are close to those in a literature known Zn(II) polymer [12]. Two Zn(II) ions are linked by two immb ligands into binuclear [Zn2(immb)2] units, and glu2− anions connect the binuclear units to generate one-dimensional chains (cf. the Figure 1) that run along the a axis. There are four kinds of intra-chain O—H⋯O hydrogen bonds. In addition, one-dimensional chains are connected by N4—H⋯O4′ (′ = −x + 1, y + 1/2, −z + 1/2) hydrogen bonds forming a three-dimensional supramolecular architecture in the solid state.

Acknowledgements

This study was supported by Science and Technology Innovation Talents of Henan University of Chinese Medicine (2014XCXRC04) and Henan University of Chinese Medicine, Provincial Scientific Research Business (2014KYYWF-QN03).

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Received: 2018-06-28
Accepted: 2018-08-21
Published Online: 2018-09-29
Published in Print: 2018-12-19

©2018 Yan-Ju Liu et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

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  53. Crystal structure of (E)-3′,6′-bis(ethylamino)-2′,7′-dimethyl-2-((pyridin-2-ylmethylene)amino)spiro[isoindoline-1,9′-xanthen]-3-one, C32H31N5O2
  54. The crystal structure of 2-(4-fluorophenyl)-1,3,4-oxadiazole, C8H5FN2O
  55. Crystal structure of (2,2′-bipyridine-κ2N,N′)bis(tri(p-tolyl)phosphine-κP)copper(I) tetrafluoroborate – 4,4′-bipyridine (2/1), C57H54BCuF4N3P2
  56. The crystal structure of 2,6-dimethyl-3,5-dinitrocyclohexa-2,5-diene-1,4-dione, C8H6N2O6
  57. The crystal structure of 2,3-dimethyl-1,4-dinitrobenzene – a Z′ = 4 structure, C8H8N2O4
  58. Crystal structure of [(1,2-η)-1,2,3,4,5-pentamethyl-cyclopenta-2,4-dien-1-yl] (1,4,10,13-tetraoxa-7,16-diazacyclooctadecane-κ6N2,O4) rubidium (I), [Rb(diaza-18-crown-6)]Cp*, C22H41N2O4Rb
  59. Crystal structure of 2-(4-fluorophenyl)-N-phenyl-2-(phenylamino)ethanesulfonamide – toluene (1/0.5), C23.5H23FN2O2S
  60. Crystal structure of pyrene-4-aldehyde, C17H10O
  61. Crystal structure of 2-(furan-2-yl)-5-methyl-1,3-dioxane-5-carboxylic acid, C10H12O5
  62. Crystal structure of 2-(4-chlorophenyl)-3-phenyl-1,8-naphthyridine, C20H13N2Cl
  63. Crystal structure and photochromism of 1-(2-ethyl-5-formylthiophen-3yl)-2-(2-cyano-1,5-dimethyl-4-pyrrl)-3,3,4,4,5,5-hexafluorocyclopent-1-ene, C19H14F6N2OS
  64. Crystal structure of 2-(4-bromophenyl)-1,3-dimethyl-1H-perimidin-3-ium iodide, C19H16BrIN2
  65. Crystal structure of 2-(4-(dimethylamino)phenyl)-10-methylacridin-9(10H)-one, C22H20N2O
  66. Crystal structure of 4-(acetoxymethyl)-6-(3-acetyl-3-(4-fluorophenyl)thioureido)cyclohex-4-ene-1,2,3-triyl triacetate, C24H26FN2O9S
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