Startseite Naturwissenschaften Crystal structure of 6,6′-((1E,1′E)-((2-phenylpyrimidine-4,6-diyl)bis(hydrazin-2-yl-1-ylidene))bis(methaneylylidene))bis(2-methoxyphenol)monohydrate, C26H26N6O5
Artikel Open Access

Crystal structure of 6,6′-((1E,1′E)-((2-phenylpyrimidine-4,6-diyl)bis(hydrazin-2-yl-1-ylidene))bis(methaneylylidene))bis(2-methoxyphenol)monohydrate, C26H26N6O5

  • Yating Hao , Pan Pan , Hairong Lan , Jiaxing Lu , Yan Wan ORCID logo EMAIL logo und Yixin Chu EMAIL logo
Veröffentlicht/Copyright: 1. Mai 2024

Abstract

C26H26N6O5, monoclinic, P21/c (no. 14), a = 10.9393(1) Å, b = 16.8724(2) Å, c = 13.5836(2) Å, β = 102.843(1)°, V = 2444.43(5) Å3, Z = 4, R gt (F) = 0.0318, wRref (F 2) = 0.0827, T = 173 K.

CCDC no.: 2335017

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: Colourless octahedral
Size: 0.30 × 0.30 × 0.30 mm
Wavelength: Cu radiation (1.54184 Å)
μ: 0.80 mm−1
Diffractometer, scan mode: SuperNova, ω
θ max, completeness: 65.0°, 99 %
N(hkl)measured, N(hkl)unique, R int: 15,390, 4107, 0.019
Criterion for I obs, N(hkl)gt: I obs > 2σ(I obs), 3837
N(param)refined: 342
Programs: CrysAlisPRO, 1 Olex2, 2 SHELX 3 , 4
Table 2:

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

Atom x y z U iso*/U eq
O1 0.53123 (9) 0.37172 (5) 0.40806 (6) 0.0339 (2)
H1 0.468743 0.401947 0.399565 0.051*
O2 0.72219 (9) 0.26102 (5) 0.46417 (7) 0.0366 (2)
O3 0.62598 (9) 0.48751 (6) 0.21450 (7) 0.0384 (2)
H3 0.554099 0.506214 0.211595 0.058*
O4 0.84353 (8) 0.43362 (6) 0.19820 (7) 0.0391 (2)
N1 0.33808 (9) 0.44322 (6) 0.45587 (7) 0.0264 (2)
N2 0.23314 (9) 0.48953 (6) 0.43701 (8) 0.0290 (2)
H2 0.182657 0.489377 0.479214 0.035*
N3 0.09995 (9) 0.57879 (6) 0.34376 (7) 0.0244 (2)
N4 0.13818 (9) 0.63718 (6) 0.19358 (7) 0.0258 (2)
N5 0.30995 (9) 0.60880 (6) 0.13371 (7) 0.0277 (2)
H5 0.277539 0.640256 0.082939 0.033*
N6 0.42555 (9) 0.57638 (6) 0.13882 (7) 0.0267 (2)
C1 0.79157 (13) 0.32184 (8) 0.42546 (11) 0.0368 (3)
H1A 0.733011 0.357195 0.380895 0.055*
H1B 0.847834 0.297194 0.387402 0.055*
H1C 0.840992 0.352419 0.481811 0.055*
C2 0.64772 (11) 0.28364 (7) 0.52923 (9) 0.0285 (3)
C3 0.66542 (12) 0.24466 (7) 0.62094 (10) 0.0331 (3)
H3A 0.733173 0.208539 0.640045 0.040*
C4 0.58495 (12) 0.25786 (8) 0.68541 (10) 0.0337 (3)
H4 0.596161 0.229895 0.747481 0.040*
C5 0.48917 (12) 0.31165 (7) 0.65859 (9) 0.0288 (3)
H5A 0.435334 0.321472 0.703317 0.035*
C6 0.46935 (11) 0.35232 (7) 0.56655 (9) 0.0251 (3)
C7 0.54908 (11) 0.33714 (7) 0.50038 (9) 0.0257 (3)
C8 0.36396 (11) 0.40640 (7) 0.54103 (9) 0.0267 (3)
H8 0.312876 0.414847 0.588211 0.032*
C9 0.20646 (10) 0.53601 (7) 0.35287 (9) 0.0235 (3)
C10 0.07261 (10) 0.62776 (7) 0.26433 (9) 0.0236 (3)
C11 0.24392 (11) 0.59361 (7) 0.20516 (9) 0.0241 (3)
C12 0.28173 (11) 0.54002 (7) 0.28348 (9) 0.0254 (3)
H12 0.354553 0.508147 0.289121 0.030*
C13 −0.03979 (11) 0.67907 (7) 0.25598 (9) 0.0264 (3)
C14 −0.08526 (12) 0.69779 (7) 0.34110 (10) 0.0312 (3)
H14 −0.046401 0.675809 0.404751 0.037*
C15 −0.18662 (12) 0.74818 (8) 0.33353 (11) 0.0381 (3)
H15 −0.216220 0.761225 0.392170 0.046*
C16 −0.24494 (13) 0.77956 (9) 0.24138 (12) 0.0442 (4)
H16 −0.314540 0.814172 0.236430 0.053*
C17 −0.20166 (13) 0.76044 (9) 0.15622 (12) 0.0436 (4)
H17 −0.242543 0.781323 0.092440 0.052*
C18 −0.09901 (12) 0.71101 (8) 0.16336 (10) 0.0344 (3)
H18 −0.068933 0.698877 0.104662 0.041*
C19 0.48262 (12) 0.59882 (7) 0.07041 (9) 0.0284 (3)
H19 0.442741 0.636161 0.021320 0.034*
C20 0.60527 (12) 0.56933 (7) 0.06543 (9) 0.0283 (3)
C21 0.65858 (13) 0.59466 (8) −0.01408 (10) 0.0358 (3)
H21 0.614971 0.631659 −0.061979 0.043*
C22 0.77297 (14) 0.56649 (9) −0.02320 (11) 0.0421 (4)
H22 0.808035 0.583926 −0.077459 0.051*
C23 0.83805 (13) 0.51251 (8) 0.04653 (11) 0.0389 (3)
H23 0.917388 0.493269 0.039768 0.047*
C24 0.78782 (12) 0.48684 (7) 0.12543 (10) 0.0313 (3)
C25 0.67080 (12) 0.51503 (7) 0.13550 (9) 0.0284 (3)
C26 0.96218 (14) 0.40182 (10) 0.19022 (13) 0.0508 (4)
H26A 0.953087 0.374199 0.125534 0.076*
H26B 0.991774 0.364470 0.245646 0.076*
H26C 1.022951 0.445013 0.194023 0.076*
O5 0.11035 (9) 0.49871 (6) 0.59788 (7) 0.0413 (3)
H5B 0.046578 0.474642 0.609192 0.062*
H5C 0.146930 0.517352 0.654939 0.062*

1 Source of materials

All reagents and starting materials were commercially available and used as received.

The title compound was synthesized by a two-step reaction. Firstly, the intermediate 4,6-dihydrazineyl-2-phenylpyrimidine was synthesized by nucleophilic substitution reaction based on the previous work of our research group. 5 Secondly, the title compound was synthesized by condensation reaction of the above intermediate and 2-hydroxy-3-methoxybenzaldehyde. 4,6-dihydrazineyl-2-phenylpyrimidine (2 mmol, 0.432 g) and 2-hydroxy-3-methoxybenzaldehyde (4.2 mmol, 0.638 g) were dissolved in ethanol. The mixture was stirred at room temperature for 2 h, and then refluxed at 78 °C. White solids were gradually precipitated during the reaction, and the reaction process was monitored by thin-layer chromatography. Finally, the precipitated solid was filtered, washed with ethanol, and then purified by column chromatography (petroleum ether: ethyl acetate = 1:1 v/v) to afford the title compound as white powder. Yield: ca. 63 %. Crystallization from acetonitrile at room temperature gave the title compound as white block crystals.

2 Experimental details

The structure was solved by Direct Methods and refined by using Olex2 and SHELXTL software. The H atoms were added using riding models. Their U iso values were set to 1.2 U eq of the parent atoms.

3 Comment

Pyrimidine derivatives have attracted considerable attention due to their wide range of pharmacological properties including anticancer, 6 , 7 anti-inflammatory 8 and antibacterial 9 activities. It was found that incorporating hydrazone functional group into the pyrimidine backbone helps to enhance the biological activity. 10 Therefore, there is growing interest in synthesizing and exploring the crystal structure of compounds containing pyrimidine and hydrazone moieties. As a continuation of our research, 5 , 11 a new pyrimidine dihydrazone derivative was synthesized and characterized by X-ray diffraction.

The title compound crystallizes in the monoclinic space group P21/c with one molecule in the asymmetric unit (see the figure). The molecule structure consists of a phenylpyrimidine group and two 2-hydroxy-3-methoxy substituted phenyl groups linked by hydrazone groups. The crystal lattice also contains one water molecule. Bond lengths and angles are all in the normal range. The bond lengths of C8–N1 (1.2879 Å) and C19–N6 (1.2864 Å) indicate the existence of C=N double bond, which is typical for similar hydrazone compounds. 12 14 The molecule adopts E configuration about the C=N double bond. In addition, two hydrazone arms are slightly twisted out of the plane of phenylpyrimidine unit, which was also observed for the pyrimidine dihydrazone compound investigated earlier. 12 The dihedral angle between pyrimidine and substituted phenyl rings are 8.43° and 5.15°, respectively. Intramolecular O–H⋯N hydrogen bonds are found between phenolic oxygen atoms and imine nitrogen atoms [O1⋯N1: 2.6366 (14) Å, O3⋯N6: 2.6665 (13) Å].


Corresponding authors: Yan Wan and Yixin Chu, Henan University of Chinese Medicine, Zhengzhou, 450046, P.R. China, E-mail: (Y. Wan), (Y. Chu)

  1. Author contribution: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.

  2. Research funding: This work was supported by the Natural Science Foundation of Henan, China (Project No. 202300410261).

  3. Conflict of interest statement: The authors declare no conflicts of interest regarding this article.

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Received: 2024-03-04
Accepted: 2024-04-16
Published Online: 2024-05-01
Published in Print: 2024-08-27

© 2024 the author(s), published by De Gruyter, Berlin/Boston

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

Artikel in diesem Heft

  1. Frontmatter
  2. New Crystal Structures
  3. The crystal structure of hexaquazinc(II) poly[hexakis(μ2-4-methylbenzenesulfinato-κ2O:O′) dizinc(II)]
  4. The crystal structure of poly[((2-(4,5-dihydro-1H-pyrazol-4-yl)-1,3-dioxoisoindoline-5-carbonyl)oxy)(1-(dimethylamino)ethoxy)zinc[II]], C16H14ZnN4O5
  5. Crystal structure of bis[(triaqua-4-iodopyridine-2,6-dicarboxylato-κ 3 N,O,O )cobalt(II)] trihydrate, C14H22N2O17I2Co2
  6. Crystal structure of bis(methanol-κO)-bis(nitrato-kO)-bis(1-((2-(2-chloro-4-(4-chlorophenoxy)phenyl)-4-methyl-1,3-dioxolan-2-yl)methyl)-1H-1,2,4-triazole-κN)cadmium(II), C40H42O14N8Cl4Cd
  7. Crystal structure of poly[μ2-dichlorido-(μ2-1-[(2,4-dimethyl-1H-triazole-1-yl)methyl]-1H-benzotriazole-κ2N:N′)cadmium(II)], C11H12CdN6Cl2
  8. The crystal structure of (3aS, 4R, 7S, 7aR)-hexahydro-4, 7-methano-1H-isoindole-1, 3-(2H)-dione, C9H11NO2
  9. The crystal structure of N-(acridin-9-yl)-4-chloro-N-(4-chloro-butanoyl) butanamide, C21H20Cl2N2O2
  10. Crystal structure of 3,3′-dimethoxy-4,4′-oxy-di-benzaldehyde, C16H14O5
  11. The crystal structure of tetrakis(μ 2-2-amino-3,5-dibromobenzoate-κ 2 O:O′)-octakis(n-butyl-κ 1 C)-bis(μ 3-oxo)tetratin(II), C60H92Br8N4O10Sn4
  12. Crystal structure of methyl-1-(naphthalen-1-yl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b] indole-3-carboxylate, C23H20N2O2
  13. Crystal structure of tetrapropylammonium bicarbonate–1-(diaminomethylene)thiourea(1/1)
  14. Crystal structure of 6,6′-((1E,1′E)-((2-phenylpyrimidine-4,6-diyl)bis(hydrazin-2-yl-1-ylidene))bis(methaneylylidene))bis(2-methoxyphenol)monohydrate, C26H26N6O5
  15. Crystal structure of bis(N,N,N-trimethylbutanaminium) tetrathiotungstate(VI), (BuMe3N)2[WS4]
  16. The crystal structure of 2,3,9-triphenyl-9-(2-phenylbenzofuran-3-yl)-9H-9λ 5-benzo[4,5][1,2]oxaphospholo[2,3-b][1,2,5]oxadiphosphole 2-oxide, C40H28O4P2
  17. Crystal structure of 1–methyl-3-propyl-4-nitro-1H-pyrazole-5-carboxylic acid, C8H11N3O4
  18. Crystal structure of N-(benzo[d]thiazol-2-yl)-2-chloroacetamide, C9H7ClN2OS
  19. The crystal structure of N-benzyl-2-chloro-N-(p-tolyl) acetamide, C16H16ClNO
  20. Crystal structure of 3,4-dimethoxybenzyl 2-(6-methoxynaphthalen-2-yl)propanoate, C23H24O5
  21. Crystal structure of 2,5-bis(2,5-dimethoxybenzyl)-3,6-dimethyl-2,5-dihydropyrrolo[3,4-c]pyrrole-1,4-dione, C26H28N2O6
  22. Crystal structure of poly[(μ3-5-bromoisophthalato-κ4 O,O′ :O″,O‴)-(μ2-1,2-bis(1,2,4-triazole-1-ylmethyl)benzene-κ2 N:N′)cobalt(II)], C20H15BrCoN6O4
  23. The crystal structure of bis(2-(piperidin-1-ium-4-yl)-1Hbenzo[d]imidazol-3-ium) dihydrogen decavanadate, C24H36N6O28V10
  24. Crystal structure of diaqua-bis(1-(3-carboxyphenyl)-5-methyl-4-oxo-1,4-dihydropyridazine3-carboxylato-O,O′)-cobalt(ii)dihydrate, C26H36N4O14Co
  25. Crystal structure of poly[(μ2-5-bromoisophthalato-κ4 O,O :O ,O )-(μ2-1,4-bis(2-methylimidazol-1-ylmethyl)benzene-N:N)cadmium(II)], C24H21BrCdN4O4
  26. The crystal structure of dimethyl 8-(3-methoxy-2-(methoxycarbonyl)-3-oxoprop-1-en-1-yl)-4-methyl-1-(p-tolyl)-1,3a,4,8b-tetrahydro-3H-furo[3,4-b]indole-3,3-dicarboxylate. C28H29NO9
  27. Crystal structure of (3R)-1-(3,5-dimethoxyphenyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylate chloride, C21H23ClN2O4
  28. Synthesis and crystal structure of 3-(4,5-dihydroisoxazol-3-yl)-2-methyl-4-(methylsulfonyl)benzoic acid, C12H13NO5S
  29. The crystal structure of hexaaquamagnesium(II) bis-3-(1,2,3,4-tetrahydrobenzo[4,5]imidazo[1,2-α]pyridin-1-yl)benzoate, C36H42N4O10Mg
  30. Crystal structure of 4-formyl-2-methoxyphenyl 2-acetoxybenzoate, C17H14O6
  31. Crystal structure of poly[octakis(μ-oxido)-tris(μ-1,1′-[[1,1′-biphenyl]-4,4′-diylbis(methylene)]bis(1H-imidazole))-tetrakis(oxido)-tetra-vanadium-dimanganese(II)dihydrate], C30H29MnN6O7V2
  32. Crystal structure of 4,8a-bis(4-chlorophenyl)-1,5,6-tris(4-fluorobenzyl)-1,4,4a,4b,5,6,8a,8b-octahydrocyclobuta[1,2-b:3,4-c′]dipyridine-3,8-dicarbonitrile, C45H33Cl2F3N4
  33. Crystal structure of benzo[d][1,3]dioxol-5-ylmethyl 2-(6-methoxynaphthalen-2-yl)propanoate, C22H20O5
  34. Crystal structure of N-benzoyl-N-phenylhydroxylaminato-dicarbonylrhodium(I), [Rh(BNA)CO2]
  35. The crystal structure of N-(2-((2-methoxynaphthalen-1-yl)ethynyl)phenyl)-4-methylbenzenesulfonamide, C26H21NO3S
  36. The crystal structure of methyl ((4-aminobenzyl)sulfonyl)-d-prolinate, C13H18N2O4S
  37. The crystal structure of dichlorido-(N-isopropyl-N-(pyridin-2-ylmethyl)propan-2-amine-κ 2 N, N′)palladium(II), C12H20N2PdCl2
  38. Crystal structure of poly[(μ 2-5-hydroxyisophthalato-κ4 O,O′:O″,O‴)-(μ 2-1,4-bis(2-methylimidazolyl)-1-butene-N:N′)nickel(II)], C20H20NiN4O5
  39. The crystal structure of {hexakis(1-methyl-1H-imidazole-κ 1 N)cobalt(II)}(μ 2-oxido)-hexaoxido-dimolybdenum(VI)— 1-methyl-1H-imidazole (1/2), C32H48CoMo2N16O7
  40. Synthesis, crystal structure and nonlinear optical property of 1-((propan-2-ylideneamino)oxy)propan-2-yl-4-methylbenzenesulfonate, C13H19O4NS
  41. The crystal structure of N,N-(ethane-1,1-diyl)dibenzamide, C16H16N2O2
  42. Crystal structure of 1-(4-bromophenyl)-3-(diphenylphosphoryl)-3-hydroxypropan-1-one, C21H18BrO3P
  43. The crystal structure of fac-tricarbonyl(bis(3,5-dimethyl-4H-pyrazole)-κ1 N)-((nitrato)-κ1 O)-rhenium(I)— 3,5-dimethyl-4H-pyrazole(1/1), C18H23N7O6Re
  44. The crystal structure of 4′-chloro-griseofulvin: (2S,6′R)-4′,7-dichloro-4,6-dimethoxy-6′-methyl-3H-spiro[benzofuran-2,1′-cyclohexan]-3′-ene-2′,3-dione, C16H14Cl2O5
  45. Crystal structure of tetraethylammonium bicarbonate–1-(diaminomethylene)thiourea(1/1)
  46. Crystal structure of 1-cyclohexyl-4-p-tolyl-1,4-dihydropyridine-3,5-dicarboxylic acid dimethyl ester, C22H27NO4
  47. The crystal structure of catena-poly(μ2-1,4-bis-(1H-imidazol-1-yl)benzene-copper(I)) dichloridocopper(I), {[CuC12H10N4]+[CuCl2]} n
  48. The crystal structure of propane-1-aminium-2-carbamate, C4H10N2O2
  49. Crystal structure of 5,6,3′,4′,5′-pentamethoxy-flavone dihydrate, C20H24O9
  50. Crystal structure of (E)-N-(2-bromophenyl)-4-(4-(3,5-dimethoxystyryl)phenoxy)pyrimidin-2-amine, C26H22BrN3O3
  51. Crystal structure of methyl (3R)-1-(2-bromo-4-fluorophenyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylate hydrochloride hydrate, C19H19BrClFN2O3
  52. The crystal structure of 1-(2-chlorophenyl)-3-(p-tolyl)urea, C14H13ClN2O
  53. The crystal structure of 1-cyclohexyl-3-(p-tolyl)urea, C14H20N2O
  54. Crystal structure of ((benzyl(hydroxy)-amino)(4-chlorophenyl)methyl)-diphenylphosphine oxide, C26H23ClNO2P
  55. The crystal structure of ethyl 3-(1-methyl-1H-indole-2-carbonyl)-2-phenylquinoline-4-carboxylate, C28H22N2O3
  56. The crystal structure of 1,4-bis(1H-imidazol-3-ium-1-yl)benzene dinitrate, C12H12N4 2+·2(NO3 )
  57. Crystal structure of tris(hexafluoroacetylacetonato-κ2O,O′) bis(triphenylphosphine oxide-κ1O)samarium(III), C51H33F18O8P2Sm
  58. Crystal structure of 1-(4-(dimethylamino)phenyl)-2,3-bis(diphenylphosphoryl)propan-1-one, C35H33NO3P2
  59. Crystal structure of diaqua[bis(μ 2-pyridine 2,6-dicarboxylato) bismuth(III) potassium(I)], C14H10BiKN2O10
  60. Crystal structure of (R)-N, N -dimethyl-[1, 1′-binaphthalene]-2, 2′-diamine, C22H20N2
  61. Crystal structure of 1-phenyl-4-(2-furoyl)-3-furyl-1H-pyrazol-5-ol, C18H12N2O4
  62. Crystal structure of bis(14,34-dimethyl[11,21:23,31-terphenyl]-22-yl)diselane, C40H34Se2
Heruntergeladen am 9.12.2025 von https://www.degruyterbrill.com/document/doi/10.1515/ncrs-2024-0109/html?lang=de
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