Home Crystal structure of bis(8-ethyl-5-oxo-2-(piperazin-4-ium-1-yl)-5,8-dihydropyrido[2,3-d]pyrimidine-6-carboxylato-κ2O,O′)copper(II) benzene-1,4-dicarboxylate dihydrate, C36H42CuN10O12
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Crystal structure of bis(8-ethyl-5-oxo-2-(piperazin-4-ium-1-yl)-5,8-dihydropyrido[2,3-d]pyrimidine-6-carboxylato-κ2O,O′)copper(II) benzene-1,4-dicarboxylate dihydrate, C36H42CuN10O12

  • Ling Zhu and Tian Zhou EMAIL logo
Published/Copyright: March 19, 2016

Abstract

C36H42CuN10O12, triclinic, P1̅ (no. 2), a = 5.2227(1) Å, b = 10.9412(1) Å, c = 16.7603(2) Å, α = 96.292(1)°, β = 95.972(1)°, γ = 100.010(1)°, V = 930.02(2) Å3, Z = 1, Rgt(F) = 0.0494, wRref(F2) = 0.1543, T = 296 K.

CCDC no.:: 1456741

The crystal structure is shown in the figure. Tables 13 contain details of the measurement method and a list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Blue, block, size 0.15×0.20×0.23 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:6.67 cm−1
Diffractometer, scan mode:CCD area detector, φ and ω scans
2θmax:50°
N(hkl)measured, N(hkl)unique:13160, 3279
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 2977
N(param)refined:270
Programs:SHELX [5]
Table 2:

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

AtomSitexyzUiso
H(2A)2i0.28710.24740.35220.048
H(2B)2i0.11040.34110.32440.048
H(4)2i−0.02791.02110.24780.038
H(5)2i−0.02300.70740.49090.043
H(10A)2i0.43210.85470.20600.048
H(10B)2i0.25570.94300.17030.048
H(11A)2i0.76790.51220.28000.050
H(11B)2i0.61220.61230.24930.050
H(12A)2i0.24770.45720.20100.051
H(12B)2i0.49100.42110.16290.051
H(13A)2i0.39040.44210.43660.050
H(13B)2i0.63530.40930.39790.050
H(16)2i0.40720.19780.02970.052
H(17)2i0.8662−0.05300.06550.053
H(18A)2i0.10580.68130.15850.091
H(18B)2i0.17660.75470.08610.091
H(18C)2i−0.07830.76810.12540.091
H(1A)2i0.25730.25570.21480.048
H(1B)2i0.52870.28430.25190.048
H(1W)2i0.60270.44080.00340.126
H(2W)2i0.76840.41010.05350.126
Table 3:

Fractional coordinates and atomic displacement parameters (Å2).

AtomSitexyzU11U22U33U12U13U23
Cu(1)1f−0.510.50.0362(4)0.0356(3)0.0347(3)0.0142(2)0.0088(2)0.0044(2)
C(1)2i−0.1385(6)0.8916(3)0.4093(2)0.030(2)0.028(1)0.029(2)0.005(1)0.004(1)0.001(1)
C(2)2i0.2882(7)0.3253(3)0.3295(2)0.045(2)0.028(2)0.049(2)0.013(1)−0.000(2)0.005(1)
C(3)2i−0.1499(6)0.9768(3)0.3514(2)0.029(2)0.028(1)0.033(2)0.006(1)0.005(1)0.003(1)
C(4)2i−0.0145(6)0.9653(3)0.2855(2)0.034(2)0.032(2)0.032(2)0.010(1)0.003(1)0.007(1)
C(5)2i0.0625(7)0.7085(3)0.4450(2)0.045(2)0.035(2)0.031(2)0.012(1)0.007(1)0.004(1)
C(6)2i0.1643(6)0.7959(3)0.3272(2)0.031(2)0.026(1)0.031(2)0.006(1)0.002(1)0.000(1)
C(7)2i0.0292(6)0.8016(3)0.3950(2)0.033(2)0.030(2)0.027(1)0.006(1)0.004(1)0.004(1)
C(8)2i0.3327(6)0.6308(3)0.3638(2)0.031(2)0.028(1)0.034(2)0.007(1)−0.002(1)−0.002(1)
C(9)2i−0.3056(6)1.0801(3)0.3552(2)0.031(2)0.035(2)0.040(2)0.010(1)0.007(1)0.004(1)
C(10)2i0.2527(7)0.8664(3)0.1946(2)0.048(2)0.043(2)0.034(2)0.017(2)0.016(1)0.010(1)
C(11)2i0.5952(6)0.5335(3)0.2716(2)0.035(2)0.035(2)0.058(2)0.013(1)0.013(2)0.002(2)
C(12)2i0.4156(7)0.4324(3)0.2131(2)0.049(2)0.040(2)0.043(2)0.019(2)0.011(2)0.004(1)
C(13)2i0.4637(7)0.4305(3)0.3861(2)0.053(2)0.032(2)0.042(2)0.020(2)−0.004(2)0.003(1)
C(14)2i0.6681(6)0.0881(3)0.0577(2)0.037(2)0.039(2)0.032(2)0.009(1)0.008(1)0.007(1)
C(15)2i0.8520(6)0.1824(3)0.1192(2)0.040(2)0.043(2)0.032(2)0.009(1)0.009(1)0.005(1)
C(16)2i0.4457(7)0.1184(3)0.0179(2)0.045(2)0.038(2)0.048(2)0.013(2)0.005(2)0.000(2)
C(17)2i0.7184(7)−0.0312(3)0.0390(2)0.042(2)0.045(2)0.045(2)0.013(2)−0.002(2)0.004(2)
C(18)2i0.100(1)0.7578(4)0.1358(2)0.096(3)0.054(2)0.034(2)0.021(2)0.010(2)0.003(2)
N(1)2i0.3768(5)0.3128(2)0.2483(2)0.039(2)0.034(1)0.046(2)0.014(1)−0.002(1)−0.005(1)
N(2)2i0.4895(5)0.5468(2)0.3491(2)0.039(1)0.029(1)0.042(2)0.011(1)0.001(1)0.001(1)
N(3)2i0.2055(6)0.6235(2)0.4309(2)0.048(2)0.033(1)0.035(1)0.014(1)0.004(1)0.006(1)
N(4)2i0.3165(5)0.7136(2)0.3110(2)0.034(1)0.029(1)0.034(1)0.009(1)0.005(1)0.003(1)
N(5)2i0.1360(5)0.8788(2)0.2719(2)0.036(1)0.031(1)0.028(1)0.009(1)0.008(1)0.006(1)
O(1)2i−0.4465(5)1.0922(2)0.4126(1)0.049(1)0.044(1)0.044(1)0.024(1)0.017(1)0.010(1)
O(2)2i−0.2952(5)1.1490(2)0.3023(2)0.066(2)0.058(2)0.060(2)0.042(1)0.032(1)0.029(1)
O(3)2i−0.2631(4)0.8891(2)0.4707(1)0.041(1)0.039(1)0.034(1)0.016(1)0.014(1)0.0070(9)
O(4)2i0.8069(5)0.2890(2)0.1348(2)0.057(2)0.041(1)0.060(2)0.016(1)−0.004(1)−0.005(1)
O(5)2i1.0482(5)0.1446(2)0.1520(1)0.047(1)0.042(1)0.037(1)0.011(1)0.000(1)0.001(1)
O(6)2i0.7554(8)0.4709(4)0.0273(3)0.108(3)0.091(3)0.129(3)0.021(2)0.041(3)0.047(3)

Source of material

A mixture of Cu(CH3COO)2 · H2O (0.25 mmol), Hppa (8-ethyl-5,8-dihydro-5-oxo-2-(1-piperazinyl)-pyrido(2,3-d)-pyrimidine-6-carboxylic acid) (0.5 mmol), sodium hydroxide (1 mmol) and water (15 mL) was stirred for 15 min in air. The mixture was then transferred to a 25 mL Teflon-lined hydrothermal autoclav, which was heated to 438 K for 72 h under autogenous pressure. After cooling, blue single crystals of title compound were obtained from the reaction mixture.

Experimental details

The carbon-bound H atoms were positioned geometrically (C—H = 0.93–0.97 Å) and were included in the refinement in the riding model approximation, with U(H) = 1.2Ueq(C). The H atoms at the nitrogen and the water molecule were located in a difference Fourier map, and refined with a distance restraint of N—H = 0.86(1) or 0.85(1) Å and with U(H) = 1.5Ueq(N, O).

Discussion

Pipemidic acid (Hppa, C14H16N5O3, 8-ethyl-5,8-dihydro-5-oxo-2-(1-piperazinyl)-pyrido(2,3-d)-pyrimidine-6-carboxylic acid) is member of a class of quinolones used to treat infections [1]. Our interest in pipemidic acid and related quinolones is focused on their potential as multidentate/bridging ligands in coordination chemistry. The nickel, zinc and manganese complexe of the monodeprotonated anion of the pipemidic acid have been reported [24].

In the title compound, Cu(C14H17N5O3)2)(C8H4O4) · 2H2O, the CuII atom exhibits a CuO4 square geometry defined by two neutral bidentate O,O-bonded 8-ethyl-5,8-dihydro-5-oxo-2-(1-piperazinyl)-pyrido(2,3-d)-pyrimidine-6-carboxylate (Hppa) zwitterions.

The charge-balancing benzene-1,4-dicarboxylate (1,4-bdc) anion also shows a crystallographically imposed centrosymmetry. An extensive network of O—H⋯O and O—H⋯N hydrogen bonds helps to establish the crystal packing.


Corresponding author: Tian Zhou, School of Environmental and Biological Engineering, Guangdong University of Petrochemical Technology, Maoming, 525000, Guangdong Province, P. R. China, e-mail:

Acknowledgements:

The authors acknowledge financial support of the National Natural Science Foundation of China (grant No. 31470405) and Guangdong University of Petrochemical Technology.

References

1. Mizuki, Y.; Fujiwara, I.; Yamaguchi, T.: Pharmacokinetic interactions related to the chemical structures of fluoroquinolones. J. Antimicrob. Chemother. 37 (1996) 41–45.10.1093/jac/37.suppl_A.41Search in Google Scholar PubMed

2. An, Z.; Zhu, L.: Poly[bis[-8-ethyl-5-oxo-2-(piperazin-1-yl)-5,8-dihydropyrido[2,3-d]pyrimidine-6-carboxylato]nickel(II)]. Acta Crystallogr. E66 (2010) m123.10.1107/S1600536809055408Search in Google Scholar PubMed PubMed Central

3. Xu, W.; Zhu, D. S.; Song, X. D.; An, Z.: Poly[[bis[8-ethyl-5-oxo-2-(piperazin-1-yl)-5,8-dihydropyrido[2,3-d] pyrimidine-6-carboxylato]zinc(II)]dihydrate]. Acta Crystallogr. E65 (2009) m1223.10.1107/S1600536809036939Search in Google Scholar PubMed PubMed Central

4. Huang, J.; Hu, W. P.; An, Z.: Poly[[bis[8-ethyl-5-oxo-2-(piperazin-1-yl)-5,8-dihydropyrido[2,3-d]pyrimidine-6-carboxylato] manganese(II)]dihydrate]. Acta Crystallogr. E64 (2008) 547.10.1107/S1600536808006533Search in Google Scholar PubMed PubMed Central

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Received: 2015-12-21
Accepted: 2016-3-1
Published Online: 2016-3-19
Published in Print: 2016-6-1

©2016 Ling Zhu et al., published by De Gruyter.

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

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  66. Crystal structure of 13-(4-fluorophenyl)-11,13-dihydro-1H-benzo[h]indazolo[6,7-b] [1, 6]naphthyridin-12(6H)-one — dimethylformamide — water (1/2/1), C29H31FN6O4
  67. Crystal structure of 1-(2-chlorophenyl)-2-(2-nitrophenyl)ethan-1-ol, C14H12ClNO3
  68. Crystal structure of (Z)-2-((2-bromo-1-phenylvinyl)oxy)benzonitrile, C15H10BrNO
  69. Crystal structure of tetrachlorido(1E,1′E)-N,N′-((1,4-phenylenebis(propane-2,2-diyl))bis(4,1-phenylene))bis(1-(pyridin-2-yl-κN)methanimine-κN)dizinc(II), C36H34N4Zn2Cl4
  70. Crystal structure of 2,6-bis(3-methylpyridinyl)hexahydro-4,8-ethenopyrrolo-[3,4-f]isoindole-1,3,5,7(2H,6H)-tetrone, C24H20N4O4
  71. Crystal structure of trans-bis(2-methylmaleato-κ2O,O′) bis(piperazinium-κN) cobalt(II) trihydrate, C18H36CoN4O11
  72. Crystal structure of (E)-4-chloro-N′-(4-(diethylamino)benzylidene)benzohydrazide, C18H20ClN3O
  73. Crystal structure of 3,6-di(1H-imidazol-1-yl)-9H-carbazole, C18H13N5
  74. Crystal structure of 4-(4-pyridinyl)-1-naphthoic acid, C16H11NO2
  75. Crystal structure of 1,1′-diformyl-4,4′-(6H,12H-5,11-methano-dibenzo[b,f][11,5]diazocine-2,8-diyl)dibenzene, C29H22N2O2
  76. Crystal structure of N′-(adamantan-2-ylidene)pyridine-3-carbohydrazide, C16H19N3O
  77. Crystal structure of 1,1′-(butane-1,4-diyl)bis(5-methyl-1H-pyrazole-3-carbaldehyde), C14H18N4O2
  78. Crystal structure of methyl 8-hydroxy-3-isopropyl-5a,8-dimethyl-2,3,4,5,5a,6,7,8,10a,10b-decahydrocyclohepta[e]indene-3a(1H)-carboxylate, C21H34O3
  79. Crystal structure of 6-oxo-4-propyl-2-(propylthio)-1,6-dihydropyrimidine-5-carbonitrile, C11H15N3OS
  80. Crystal structure of poly[diacetato(μ2-1,4-bis(1H-imidazol-1-yl)benzene-κ2N:N′)nickel(II)], C26H22N8NiO4
  81. Crystal structure of bis(2,4-dibromo-6-{(E)[(4-fluorobenzyl)imino]methyl}phenolato-κ2N,O) copper(II), C28H18Br4F2N2O2Cu
  82. Crystal structure of 1-(adamantan-1-yl)-3-phenylthiourea, C17H22N2S
  83. Crystal structure of 3-(6-(5-amino-1-phenyl-1H-pyrazol-3-yl)pyridin-2-yl)-1-phenyl-1H-pyrazol-5-amine – dioxan (2/1), C25H23N7O
  84. Crystal structure of 5-ethyl-6-[(3-methylphenyl)sulfanyl]pyrimidine-2,4(1H,3H)-dione, C13H14N2O2S
  85. Crystal structure of (((1E,1′E)-(cyclohexane-1,2-diylbis(azanylylidene-κ2N,N′))bis(methanylylidene))bis(2,1-phenylene))bis((2,6-diisopropylphenyl)amide-κ2N′′,N′′′)manganese(II), C44H54N4Mn
  86. Crystal structure of prop-2-en-1-yl 2-oxo-2H-1-benzopyran-3-carboxylate, C13H10O4
  87. Crystal structure of bis(μ2-2-((3-methylphenyl)imino)methylphenolato-κ2N,O:O)hexacarbonyldimanganese(I), C34H24Mn2N2O8
  88. Crystal structure of (Z)-1-(1,5-dimethyl-1H-pyrazol-3-yl)-3-hydroxybut-2-en-1-one C9H12N2O2
  89. Crystal structure of 2,2′-[pentane-1,5-diylbis(oxy)]dibenzaldehyde, C19H20O4
  90. Crystal structure of 2-phenyl-5,6,7,8-tetrahydro-4H-benzo[4,5]thieno[2,3-d][1,3]oxazin-4-one, C16H13NO2S
  91. Crystal structure of (E)-1-(2-chlorophenyl)-N-(4-chlorophenyl)methanimine, C13H9Cl2N
  92. Crystal structure of ethyl 2-amino-5-bromothiazole-4-carboxylate, C6H7BrN2O2S
  93. Crystal structure of 2-benzylisothiouronium tetraphenylborate, C32H31BN2S
  94. Crystal structure of poly[(μ2-biphenyl-2,2′-dicarboxylato-κ4O,O′:O′′,O′′′)(μ2-4,4′-bipyridine-κ2N:N′)copper(II)], C24H16CuN2O4
  95. Crystal structure of (η5-pentamethylcyclopentadienyl)titanium(III)dichloride (THF), C14H23Cl2OTi
  96. Crystal structure of 3-ferrocenylsulfonyl-2-(4-methoxyphenyl)-3H-imidazo[4,5-b]pyridine, C23H19FeN3O3S
  97. Crystal structure of 2-benzoyl-3-(4-fluorophenyl)cyclopropane-1,1-dicarbonitrile, C18H11FN2O
  98. Crystal structure of 1,6-ditosyl-1,6-diazecane, C22H30N2O4S2
  99. Crystal structure of N-phenyl-2-(pyridin-4-ylcarbonyl)hydrazinecarboxamide with Z′ = 4, C13H12N4O2
  100. Crystal structure of N,N-bis(diphenylphosphanyl)cyclohexylamine, C30H31NP2
  101. Crystal structure of 3-(4-hydroxy-3-methoxyphenyl)-N-phenylpropanamide, C16H17NO3
  102. Crystal structure of 6-(2-fluorophenyl)-3-phenyl-[1,2,4]-triazolo[3,4-b][1,3,4]thiadiazole, C15H9FN4S
  103. Crystal structure of catena-poly[aqua(dicyanoazanido-2κN-μ2-dicyanoazanido-1κN:2κN′)(μ2-2-methoxy-6-(((2-((3-methoxy-2-oxidobenzylidene)amino)ethyl)imino)methyl)phenolato-1κ2N,N′,2κ2O,O′,1κ2O′′,O′′′:2κ2O′′,O′′′)cadmium(II)copper(II)], C22H20CdCuN8O5
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