Home Crystal structure of (E)-2-(3,6-bis(diethylamino)-9H-xanthen-9-yl)-N′-(quinoxalin-2-ylmethylene)benzohydrazide, C37H36N6O2
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Crystal structure of (E)-2-(3,6-bis(diethylamino)-9H-xanthen-9-yl)-N′-(quinoxalin-2-ylmethylene)benzohydrazide, C37H36N6O2

  • Jun-Ying Song , Zi-Chuang Wang and Zhen-Qiang Zhang EMAIL logo
Published/Copyright: September 9, 2019

Abstract

C37H36N6O2, monoclinic, P21/c (no. 14), a = 9.18664(12) Å, b = 14.50209(16) Å, c = 23.1787(3) Å, β = 94.0829(12)°, Z = 4, V = 3080.16(7) Å3, Rgt(F) = 0.0398, wRref(F2) = 0.1041, T = 113.5(4) K.

CCDC no.: 1935393

The asymmetric unit of the molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Yellow cube
Size:0.30 × 0.20 × 0.10 mm
Wavelength:Cu Kα radiation (1.54184 Å)
μ:0.65 mm−1
Diffractometer, scan mode:SuperNova, ω
θmax, completeness:71.3°, >99%
N(hkl)measured, N(hkl)unique, Rint:11693, 5815, 0.019
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 5224
N(param)refined:430
Programs:CrysAlisPRO [1], Olex2 [2], SHELX [3], [4]
Table 2:

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

AtomxyzUiso*/Ueq
O10.57825(10)0.89454(6)0.65906(4)0.0285(2)
O20.33937(10)0.58038(6)0.49081(4)0.0298(2)
N10.48452(11)0.77821(7)0.59775(4)0.0204(2)
N20.34460(11)0.80451(7)0.58256(4)0.0216(2)
N30.08810(12)0.97492(7)0.61378(5)0.0282(2)
N4−0.07024(12)0.88213(8)0.52145(5)0.0305(3)
N50.52290(13)0.71922(8)0.32443(5)0.0306(3)
N60.13150(14)0.41521(9)0.64134(5)0.0369(3)
C10.06009(14)0.85670(9)0.54116(6)0.0276(3)
H10.10270.80450.52430.033*
C2−0.12768(14)0.95731(9)0.54800(6)0.0291(3)
C3−0.26626(15)0.99065(10)0.52762(7)0.0364(3)
H3−0.31910.96100.49620.044*
C4−0.32424(16)1.06584(11)0.55329(8)0.0431(4)
H4−0.41721.08850.53940.052*
C5−0.24756(18)1.10972(11)0.59995(8)0.0457(4)
H5−0.28971.16150.61750.055*
C6−0.11295(17)1.07919(10)0.62060(7)0.0395(3)
H6−0.06251.10940.65240.047*
C7−0.04913(15)1.00241(9)0.59430(6)0.0294(3)
C80.14176(14)0.90366(9)0.58694(5)0.0244(3)
C90.29083(14)0.87616(9)0.60586(5)0.0246(3)
H90.34640.91040.63460.030*
C100.59138(13)0.82226(8)0.63287(5)0.0210(2)
C110.72108(13)0.76306(8)0.63168(5)0.0209(2)
C120.85992(14)0.77886(9)0.65789(5)0.0269(3)
H120.88050.83210.68090.032*
C130.96673(14)0.71423(10)0.64924(6)0.0307(3)
H131.06300.72330.66610.037*
C140.93445(14)0.63582(10)0.61600(6)0.0304(3)
H141.00930.59210.61070.036*
C150.79534(14)0.62017(9)0.59039(5)0.0253(3)
H150.77390.56630.56800.030*
C160.68901(13)0.68557(8)0.59853(5)0.0201(2)
C170.53345(12)0.68888(8)0.57155(5)0.0189(2)
C180.43751(12)0.61115(8)0.58916(5)0.0197(2)
C190.42982(13)0.58598(9)0.64700(5)0.0235(3)
H190.49440.61490.67530.028*
C200.33334(14)0.52138(9)0.66503(5)0.0252(3)
H200.33250.50680.70500.030*
C210.23514(14)0.47641(9)0.62432(6)0.0253(3)
C220.24610(14)0.49828(9)0.56604(5)0.0261(3)
H220.18550.46730.53730.031*
C230.34384(13)0.56431(8)0.54948(5)0.0224(3)
C240.43528(13)0.64363(8)0.47032(5)0.0220(2)
C250.43043(14)0.65099(9)0.41051(5)0.0255(3)
H250.36320.61440.38740.031*
C260.52363(14)0.71175(9)0.38383(5)0.0248(3)
C270.62020(14)0.76467(9)0.42058(6)0.0261(3)
H270.68430.0730.40430.031*
C280.62259(13)0.75531(9)0.47963(5)0.0234(3)
H280.69040.79100.50310.028*
C290.52999(12)0.69580(8)0.50651(5)0.0196(2)
C300.11270(16)0.39948(10)0.70262(6)0.0326(3)
H30A0.21010.39450.72360.039*
H30B0.06160.34000.70700.039*
C310.02667(18)0.47554(11)0.73013(7)0.0410(4)
H31A−0.06950.48140.70930.061*
H31B0.07950.53400.72810.061*
H31C0.01470.46010.77070.061*
C32a−0.00444(19)0.39839(12)0.60262(9)0.0276(5)
H32Aa−0.09010.39810.62620.033*
H32Ba−0.01740.44940.57430.033*
C33a0.0020(2)0.30865(15)0.57076(12)0.0526(7)
H33Aa0.08110.31090.54450.079*
H33Ba−0.09100.29800.54840.079*
H33Ca0.02030.25830.59860.079*
C32Ab0.0807(6)0.3409(4)0.5994(3)0.0272(17)
H32Cb0.06640.28180.61970.033*
H32Db0.15180.33130.56980.033*
C33Ab−0.0630(8)0.3776(5)0.5723(3)0.040(2)
H33Db−0.12770.39250.60280.059*
H33Eb−0.10910.33080.54660.059*
H33Fb−0.04490.43340.55000.059*
C340.42692(16)0.66339(11)0.28591(6)0.0347(3)
H34A0.41090.60340.30480.042*
H34B0.47650.65100.25020.042*
C350.28000(19)0.70694(13)0.26948(8)0.0517(4)
H35A0.22140.66500.24410.077*
H35B0.29420.76510.24910.077*
H35C0.22930.71890.30450.077*
C360.61503(17)0.78699(10)0.29814(6)0.0351(3)
H36A0.62130.77080.25690.042*
H36B0.71470.78300.31720.042*
C370.56214(19)0.88604(11)0.30189(7)0.0428(4)
H37A0.46540.89170.28150.064*
H37B0.63060.92720.28400.064*
H37C0.55630.90310.34260.064*
  1. aOccupancy: 0.774(4), bOccupancy: 0.226(4).

Source of material

All solvents and starting materials are commercially available and used without further treatment. The title compound was prepared by a two-step reaction according to the literature [5]. Synthesis of the intermediate rhodamine B hydrazide. To a 50 mL flask-2-neck, rhodamine B (1 mmol, 479 mg) was dissolved in 20 mL ethanol to form a plum purple clear solution. 2.0 mL hydrazine hydrate (80%, excess) was then added dropwise under vigorous stirring at room temperature. And then, the stirred mixture was refluxed for 4 h, during which the solution color changed from dark purple to grass green and finally to light orange. After that, the mixture was cooled and distilled by reduced pressure to yield precipitate. The resulting precipitate was filtered, washed several times with water. Yield: ca. 75%. Synthesis of the title compound quinoxaline-2-carboxaldehyde rhodamine B hydrazone. Rhodamine B hydrazide powder (0.5 mmol, 230 mg) was dissolved in 15 mL absolute ethanol. An ethanol solution 15 mL containing quinoxaline-2-carboxaldehyde (0.5 mmol, 79 mg) was added to the above rhodamine B hydrazide solution. And then, the stirred mixture was refluxed for 6 h. The reaction solution was reddish brown clarified solution. Then the solvent was concentrated under reduced pressure to yield a yellow precipitate. The precipitate was filtered and washed several times with cold ethanol to obtain yellow powder. Yield: ca. 70%. The yellow powder (0.02 mmol, 11.92 mg) was dissolved in ethanol/dichloromethane (1:1) (15 mL) to give a clear yellow solution to evaporate at room temperature. After one weak, pale yellow cube crystals suitable for X-ray diffraction measurements appeared. Yield: ca. 70%.

Experimental details

The H atoms were added geometrically using riding models and refined isotropically.

Comment

Quinoxalines are well known fluorescent compounds known for high quantum yields and have attracted much attention due to their potential functions in molecular probes and in polymer fields [6], [7]. Quinoxalines are easy to prepare and numerous derivatives have been designed as biologically active materials [8]. Rhodamine B derivatives have attracted attention by virtue of their long-wavelength emission and availability [9], [10]. In this paper, we report a quinoxaline-2-carboxaldehyde rhodamine B hydrazone compound. The title compound is the potential fluorescent probe for certain metal ion.

The asymmetric unit contains a neutral molecule in a ring-closed form. The amide C=O bond distance is 1.2216(15) Å, indicative of the keto form. The dihedral angle between xanthene least-square plane and quinoxaline aroylhydrozone group is 88.6°. The thermal vibration of C32 and C33 atoms at the end of xanthene is larger, so they have been disordered treated. There are apparent π-π contacts between adjacent quinoxaline groups of the adjacent molecules. The quinoxaline groups of the adjacent molecules are parallel with the face-to-face distances of 3.305 Å. There are also π-π contacts between adjacent xanthene groups of the adjacent molecules. The face-to-face distances of parallel plane of adjacent molecules is 3.569 Å and 3.553 Å. The relatively short distances and the parallel xanthene planes indicate the presence of strong intermolecular π—π contacts. All geometric parameters are in the expected ranges [11], [12].

Funding source: Scientific and Technological Brainstorm Project of Henan Province

Award Identifier / Grant number: 192102310214

Award Identifier / Grant number: 19A520005

Award Identifier / Grant number: 19A360021

Funding statement: This work was supported by the Scientific and Technological Brainstorm Project of Henan Province (192102310214) and the Foundation of Henan Educational Committee (19A520005, 19A360021).

References

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Received: 2019-04-22
Accepted: 2019-06-20
Published Online: 2019-09-09
Published in Print: 2019-11-26

©2019 Jun-Ying Song et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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  53. Crystal structure of poly[diaqua-bis(μ2-3-((1H-imidazol-1-yl)methyl)benzoato-κ2N:O)manganese(II)], C22H22MnN4O6
  54. Crystal structure of 9-(3-phenoxyphenyl)-3,4,6,7,9,10-hexahydroacridine-1,8(2H,5H)-dione, C25H23NO3
  55. The crystal structure of poly[(μ3-2,4,6-tris[4-(1H-imidazol-1-yl)phenyl]-1,3,5-triazine-k3N:N′:N′′)-(nitrato-k2O,O)-(nitrato-k1O)zinc(II)] - N,N-dimethylacetamide (1/2), C38H39N13O8Zn
  56. Crystal structure of poly[(μ7-4-(3,5-dicarboxylatophenoxy)phthalato)-(1,10-phenanthroline-κ2N,N′)dizinc(II)], C28H14N2O9Zn2
  57. The crystal structure of methyl 2-(benzylamino)-5-(benzyloxy)benzoate, C22H21NO3
  58. Crystal structure of (1,4,8,11-tetraazacyclotetradecane)palladium(II) tetracyanoplatinate(II), C14H24N8PdPt
  59. Crystal structure of (pyridine-2-carboxylato-κ2N,O)-[2-(2-pyridyl)phenyl-κ2N,C1]palladium(II), C17H12N2O2Pd
  60. Crystal structure of (cyclohexane-1,4-diammonium) 4-[(4-carboxylatophenyl)disulfanyl]benzoate dimethylsulphoxide hydrate (1/1/1/1), [C6H16N2]2+[C14H8O4S2]2−⋅C2H6OS⋅H2O
  61. Crystal structure of the 2:1 co-crystal 2-[(2-carboxyphenyl)disulfanyl]benzoic acid – 3-bromobenzoic acid, 2(C14H10O4S2)⋅C7H5BrO2
  62. Crystal structure of chlorido-dimethyl-(phenylpiperazine-1-carbodithioato-κ2S,S′)tin(IV), C13H19ClN2S2Sn
  63. Crystal structure of (N-n-butyl, N-methyl-dithiocarbamato-κ2 S,S′)-chlorido-dimethyl-tin(IV), C8H18ClNS2Sn
  64. Crystal structure of (2,2′-bipyridyl)bis(4-bromobenzyl)dibromidotin(IV), C24H20Br4N2Sn
  65. Crystal structure of (2,2′-bipyridyl)bis(4-chlorobenzyl)dichloridotin(IV), C24H20Cl4N2Sn
  66. Crystal structure of N-methyl-N-phenyl(methylsulfanyl)carbothioamide, C9H11NS2
  67. Crystal structure of 4-phenylpiperazin-1-ium (4-phenylpiperazin-1-yl)carbothioylsulfanide, [C10H15N2][C11H13N2S2]
  68. Crystal structure of catena-{di-aqua-sodium [n-butyl(methyl)carbamothioyl]sulfanide}n, [C6H16NNaO2S2]n
  69. Crystal structure of (2-([1,1-bis(hydroxymethyl)-2-oxyethyl]iminomethyl)-5-(n-decyl)phenolato)-dimethyl-tin(IV), C23H39NO5Sn
  70. Crystal structure of 4-chloro-N′-[(1E)-(3-ethoxy-2-hydroxyphenyl)methylidene]benzohydrazide – a Z′ = 3 structure, C16H15ClN2O3
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