Startseite The crystal structure of (2-diphenylphosphanylphenyl) 2-[7-(dimethylamino)-2-oxochromen-4-yl]acetate, C31H26NO4P
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The crystal structure of (2-diphenylphosphanylphenyl) 2-[7-(dimethylamino)-2-oxochromen-4-yl]acetate, C31H26NO4P

  • Constantin Mamat ORCID logo und Martin Köckerling ORCID logo EMAIL logo
Veröffentlicht/Copyright: 9. April 2024

Abstract

C31H26NO4P, monoclinic, P21/c (no. 14), a = 16.3835(2) Å, b = 14.5755(2) Å, c = 10.5388(2) Å, β = 95.694(1)°, V = 2504.22(7) Å3, Z = 4, Rgt (F) = 0.0435, wRref (F 2) = 0.1310, T = 173(2) K.

CCDC no.: 2341034

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: Green block
Size: 0.47 × 0.31 × 0.30 mm
Wavelength: Mo Kα radiation (0.71073 Å)
μ: 0.15 mm−1
Diffractometer, scan mode: Bruker APEX-II, φ and ω
θ max, completeness: 35.1°, >99 %
N(hkl)measuredN(hkl)uniqueR int: 39,467, 10,960, 0.021
Criterion for I obs, N(hkl)gt: I obs > 2σ(I obs), 8346
N(param)refined: 336
Programs: Bruker [1], Diamond [2], ciftab-2016 [3], SHELX [4], [5], [6]
Table 2:

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

Atom x y z U iso*/U eq
P1 0.60719 (2) 0.30263 (2) 0.01802 (2) 0.02214 (6)
C1 0.60626 (5) 0.37324 (6) 0.16223 (8) 0.0210 (2)
C2 0.68144 (6) 0.39913 (6) 0.22626 (9) 0.0221 (2)
C3 0.68862 (7) 0.44259 (7) 0.3435 (1) 0.0281 (2)
H3A 0.7409 0.4575 0.3855 0.034*
C4 0.61713 (8) 0.46379 (8) 0.3983 (1) 0.0328 (2)
H4A 0.6204 0.4940 0.4785 0.039*
C5 0.54134 (7) 0.44116 (8) 0.3366 (1) 0.0316 (2)
H5A 0.4928 0.4571 0.3738 0.038*
C6 0.53594 (6) 0.39519 (7) 0.2204 (1) 0.0264 (2)
H6A 0.4836 0.3785 0.1801 0.032*
O1 0.75102 (4) 0.37201 (5) 0.16804 (7) 0.0248 (1)
C7 0.80258 (6) 0.43750 (6) 0.1304 (1) 0.0244 (2)
O2 0.79994 (5) 0.51681 (5) 0.15833 (9) 0.0343 (2)
C8 0.86059 (6) 0.39503 (7) 0.0439 (1) 0.0268 (2)
H8A 0.8316 0.3879 −0.0425 0.032*
H8B 0.9073 0.4373 0.0373 0.032*
C9 0.89327 (5) 0.30291 (7) 0.0897 (1) 0.0235 (2)
C10 0.86771 (6) 0.22483 (7) 0.0290 (1) 0.0272 (2)
H10A 0.8297 0.2286 −0.0450 0.033*
C11 0.89660 (6) 0.13606 (7) 0.0737 (1) 0.0271 (2)
O3 0.95359 (4) 0.13337 (5) 0.17917 (8) 0.0283 (2)
O4 0.87432 (5) 0.06291 (6) 0.02755 (9) 0.0361 (2)
C12 0.98111 (6) 0.21229 (6) 0.2415 (1) 0.0237 (2)
C13 0.95176 (5) 0.29847 (6) 0.2002 (1) 0.0229 (2)
C14 0.98386 (6) 0.37462 (7) 0.2701 (1) 0.0258 (2)
H14A 0.9653 0.4343 0.2450 0.031*
C15 1.04130 (6) 0.36537 (7) 0.3736 (1) 0.0268 (2)
H15A 1.0621 0.4184 0.4180 0.032*
C16 1.06967 (6) 0.27740 (7) 0.4145 (1) 0.0255 (2)
C17 1.03872 (6) 0.20031 (7) 0.3454 (1) 0.0263 (2)
H17A 1.0572 0.1405 0.3699 0.032*
N1 1.12575 (6) 0.26865 (7) 0.51880 (9) 0.0340 (2)
C18 1.14924 (8) 0.17926 (8) 0.5687 (1) 0.0352 (2)
H18A 1.1000 0.1446 0.5846 0.053*
H18B 1.1846 0.1863 0.6487 0.053*
H18C 1.1790 0.1462 0.5067 0.053*
C19 1.15818 (7) 0.34953 (9) 0.5867 (1) 0.0339 (2)
H19A 1.1848 0.3893 0.5280 0.051*
H19B 1.1984 0.3309 0.6570 0.051*
H19C 1.1133 0.3830 0.6207 0.051*
C20 0.64428 (5) 0.38433 (6) −0.09489 (9) 0.0218 (2)
C21 0.64315 (6) 0.47922 (7) −0.0804 (1) 0.0253 (2)
H21A 0.6185 0.5055 −0.0110 0.030*
C22 0.67774 (7) 0.53587 (8) −0.1667 (1) 0.0317 (2)
H22A 0.6771 0.6005 −0.1555 0.038*
C23 0.71316 (7) 0.4984 (1) −0.2689 (1) 0.0370 (2)
H23A 0.7377 0.5371 −0.3268 0.044*
C24 0.71271 (8) 0.4042 (1) −0.2862 (1) 0.0384 (3)
H24A 0.7353 0.3784 −0.3577 0.046*
C25 0.67926 (7) 0.34749 (8) −0.1993 (1) 0.0302 (2)
H25A 0.6801 0.2829 −0.2109 0.036*
C26 0.49755 (6) 0.29375 (6) −0.03348 (9) 0.0221 (2)
C27 0.45447 (7) 0.22417 (8) 0.0220 (1) 0.0321 (2)
H27A 0.4825 0.1847 0.0835 0.038*
C28 0.37098 (7) 0.21222 (9) −0.0118 (1) 0.0373 (2)
H28A 0.3420 0.1657 0.0282 0.045*
C29 0.32995 (7) 0.26774 (9) −0.1033 (1) 0.0341 (2)
H29A 0.2730 0.2590 −0.1271 0.041*
C30 0.37214 (7) 0.33608 (8) −0.1602 (1) 0.0324 (2)
H30A 0.3440 0.3744 −0.2231 0.039*
C31 0.45566 (6) 0.34912 (7) −0.1257 (1) 0.0262 (2)
H31A 0.4842 0.3962 −0.1654 0.031*

1 Source of materials

7-(Dimethylamino)coumarin-4-acetic acid (293 mg, 1.18 mmol), (2-hydroxyphenyl)diphenylphosphane (300 mg, 1.08 mmol), and EDC·HCl (1-ethyl-3-(3-dimethylaminopropyl)carbodiimide-hydrochloride, 310 mg, 1.61 mmol) were dissolved in anhydrous THF (10 mL) and DMAP (4-dimethylaminopyridine, 25 mg) was added. The resulting mixture was stirred at 60 °C overnight. After cooling to rt, the solids were filtered, the organic solvent was removed and the crude product was purified via column chromatography (petroleum ether: ethyl acetate = 1:1) to obtain 295 mg (54 %) of the title compound as pale green solid. NMR and MS data are in accordance with the previously published [1].

2 Experimental details

Single crystals of the title compound were obtained by slow evaporation of a chloroform solution at ambient temperature. Coordinates of hydrogen atoms were refined constrained to the bonded atoms with U iso values set to 1.2U eq of the parent atoms (1.5U eq for the methyl-hydrogen atoms).

3 Comment

The traceless Staudinger ligation is a powerful (bio)conjugation method [8] for the connection of bioactive compounds, the introduction of radionuclides [9] and fluorescence labels [7]. Coumarins (2H-chromen-2-ones) represent a class of dye compounds with fluorescence properties (emission range ∼410–470 nm). The title compound can be used as fluorescence dye in the Staudinger ligation and was prepared in a yield of 54 % by the reaction of the coumarin-based acetic acid with diphenylphosphinophenol in the presence of EDC as coupling agent.

The asymmetric unit of the title structure contains one (2-diphenylphosphanylphenyl) 2-[7-(dimethylamino)-2-oxochromen-4-yl]acetate, C31H26NO4P molecule. The bond lengths and angles within this moiety are in the expected ranges. As expected, the C–P–C angels are smaller than the ideal tetrahedral angle (C1–P1–C20 101.78(4)°, C1–P1–C26 101.34(4)°, C20–P1–C26 103.47(4)° because of the presence of the free electron pair at P1. Intermolecular interactions between the molecules are limited to those of the van-der–Waals type. The molecular structure is shown in the Figure.


Corresponding author: Martin Köckerling, Universität Rostock Institut für Chemie Anorganische Festkörperchemie, Albert-Einstein-Str. 3a, D-18059 Rostock, Germany, E-mail:

Acknowledgments

We gratefully acknowledge support from the German Research Foundation (DFG) for funding the X-ray equipment. Special thanks go to Dr. A. Villinger (University of Rostock) for the maintenance of the X-ray equipment.

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

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

  3. Research funding: None declared.

References

1. Bruker. SMART, SAINT, SADABS and SHELXTL; Bruker AXS Inc.: Madison, Wisconsin, USA, 2003.Suche in Google Scholar

2. Brandenburg, K. DIAMOND; Crystal Impact GbR: Bonn, Germany, 2006.Suche in Google Scholar

3. Köckerling, M. ciftab-2016; University of Rostock: Germany, 2016. Unpublished.Suche in Google Scholar

4. Sheldrick, G. M. SHELXS/L (Release 2014-2), Programs for Crystal Structure Determination; University of Göttingen: Göttingen, 2014.Suche in Google Scholar

5. Sheldrick, G. M. A short history of SHELX. Acta Crystallogr. 2008, A64, 112–122.10.1107/S0108767307043930Suche in Google Scholar PubMed

6. Sheldrick, G. M. Crystal structure refinement with SHELXL. Acta Crystallogr. 2015, C71, 3–8.10.1107/S2053229614024218Suche in Google Scholar PubMed PubMed Central

7. Wodtke, R., König, J., Pigorsch, A., Köckerling, M., Mamat, C. Evaluation of novel fluorescence probes for conjugation purposes using the traceless Staudinger Ligation. Dyes Pigments 2015, 113, 263–273.10.1016/j.dyepig.2014.08.022Suche in Google Scholar

8. Bednarek, C., Wehl, I., Jung, N., Schepers, U., Bräse, S. The Staudinger ligation. Chem. Rev. 2020, 120, 4301–4354.10.1021/acs.chemrev.9b00665Suche in Google Scholar PubMed

9. Mamat, C., Gott, M., Steinbach, J. Recent progress using the Staudinger ligation for radiolabeling applications. J. Labelled Compd. Radiopharm. 2018, 61, 165–178.10.1002/jlcr.3562Suche in Google Scholar PubMed

Received: 2024-02-14
Accepted: 2024-03-20
Published Online: 2024-04-09
Published in Print: 2024-06-25

© 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 tris((Z)-2-hydroxy-N-((E)-pyridin-2-ylmethylene)benzohydrazonato-k2O,N)europium(III), C39H30N9O6Eu
  4. Crystal structure of (E)-3-(benzylideneamino)-2-phenylthiazolidin-4-one, C16H14N2OS
  5. The crystal structure of (E)-4-fluoro-N′-(1-(o-tolyl)ethylidene)benzohydrazide, C16H15FN2O
  6. Crystal structure of (6-chloropyridin-3-yl)methyl 2-(6-methoxynaphthalen-2-yl)propanoate, C20H18ClNO3
  7. Crystal structure of methyl 3-methoxy-4-(2-methoxy-2-oxoethoxy)benzoate, C12H14O6
  8. The crystal structure of bis[(4-methoxyphenyl)(picolinoyl)amido-κ2 N:N′]copper(II), C26H22CuN4O4
  9. The crystal structure of poly[di(μ2-aqua)-diaqua-bis(3-aminopyridine-4-carboxylate-κ2 O: O′)-tetra(μ2-3-aminopyridine-4-carboxylate-κ2 O: O′)-dineodymium(III), [Nd2(C6H5N2O2)6(H2O)4] n
  10. The crystal structure of t-butyl 7-[3-(4-fluorophenyl)-1-(propan-2-yl)-1H-indol-2-yl]-3,5-dihydroxyhept-6-enoate, C28H34FNO4
  11. Crystal structure of catena-poly[(benzylamine-κ1 N)-(sorbato-κ1 O)-(μ2-sorbato-κ2 O,O′)-copper(II), C19H23CuNO4
  12. Crystal structure of (4-(2-chlorophenyl)-1H-pyrrol-3-yl)(ferrocenyl) methanone, C21H16ClFeNO
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  15. Crystal structure of 2-(naphthalen-1-yl)ethyl 2-(6-methoxynaphthalen-2-yl)propanoate, C26H24O3
  16. Crystal structure of naphthalen-1-ylmethyl 2-(6-methoxynaphthalen-2-yl)propanoate, C25H22O3
  17. Crystal structure of poly[diaqua- (μ4-5-(1H-1,2,4-triazol-1-yl)benzene-1,3-dicarboxylato-κ5N:O,O’:O’’:O’’’)calcium(II), C10H9CaN3O6
  18. Crystal structure of (E)-N′-(4-((E)-3-(dimethylamino)acryloyl)-3-hydroxyphenyl)-N, N-dimethylformimidamide, C14H19N3O2
  19. Crystal structure of (E)-3-(dimethylamino)-1-(2-hydroxy-4,6-dimethoxyphenyl)prop-2-en-1-one, C13H17NO4
  20. Crystal structure of (2-chloropyridin-3-yl)methyl-2-(6-methoxynaphthalen-2-yl)propanoate, C20H18ClNO3
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  22. Crystal structure of (8R,9S,10R,13S,14S,17S)-17-hydroxy-10,13-dimethyl-17-((4-(2-phenylpropyl)phenyl)ethynyl)-1,2,6,7,8,9,10,11,12,13,14,15,16,17-tetradecahydro-3H-cyclopenta[a]phenanthren-3-one, C36H42O2
  23. Synthesis and crystal structure of 4-(4-cyclopropylnaphthalen-1-yl)-2,4-dihydro-3H-1,2,4-triazole-3-thione, C15H13N3S
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  60. Crystal structure of Ba6Cd12Mn4SiF48
  61. Synthesis and crystal structure of 5-fluoro-1-methyl-2-oxo-3-(2-oxochroman-4-yl)indolin-3-yl acetate, C20H16FNO5
  62. The crystal structure of 6-methacryloylbenzo[d][1,3]dioxol-5-yl 4-nitrobenzenesulfonate, C17H13NO8S
  63. Crystal structure of ethyl 2-(3-benzyl-4-oxo-3,4-dihydrophthalazin-1-yl)- 2,2-difluoroacetate, C19H16F2N2O3
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  65. Synthesis and crystal structure of trans-tetraaqua-bis((1-((7-hydroxy-3-(4-methoxy-3-sulfonatophenyl)-4-oxo-4H-chromen-8-yl)methyl)piperidin-1-ium-4-carbonyl)oxy-κO)zinc(II)hexahydrate, C46H64N2O28S2Zn
  66. The crystal structure of 1-(4-carboxybutyl)-3-methyl-1H-imidazol-3-ium hexafluoridophosphate, C9H15F6N2O2P
  67. Crystal structure of 1-(4-chlorophenyl)-4-(2-furoyl)-3-phenyl-1H-pyrazol-5-ol, C20H13ClN2O3
  68. Crystal structure of dimethyl (R)-2-(3-(1-phenylethyl)thioureido)-[1,1′-biphenyl]-4,4′-dicarboxylate, C25H24N2O4S
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  70. Synthesis and crystal structure of dimethyl 4,4′-(propane-1,3-diylbis(oxy))dibenzoate, C19H20O6
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