Chemistry:Cucurbituril

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Short description: Ring molecule able to store other molecules within itself
Computer models of CB[5], CB[6], and CB[7]. Top row is the view into the cavity and the bottom is the side view

In host-guest chemistry, cucurbiturils are macrocyclic molecules made of glycoluril (=C
4H
2N
4O
2=) monomers linked by methylene bridges (–CH
2–). The oxygen atoms are located along the edges of the band and are tilted inwards, forming a partly enclosed cavity (cavitand). The name is derived from the resemblance of this molecule with a pumpkin of the family of Cucurbitaceae.

Cucurbiturils are commonly written as cucurbit[n]uril, where n is the number of glycoluril units. Two common abbreviations are CB[n], or simply CBn.

These compounds are particularly interesting to chemists because they are suitable hosts for an array of neutral and cationic species. The binding mode is thought to occur through hydrophobic interactions, and, in the case of cationic guests, through cation-dipole interactions as well. The dimensions of cucurbiturils are generally on the ~10 Å size scale. For instance, the cavity of cucurbit[6]uril has a height ~9.1 Å, an outer diameter ~5.8 Å, and an inner diameter ~3.9 Å.[1]

Cucurbiturils were first synthesized in 1905 by Robert Behrend, by condensing glycoluril with formaldehyde,[2] but their structure was not elucidated until 1981.[3] The field expanded as CB5, CB7, and CB8 were discovered and isolated by Kim Kimoon in the year 2000.[4] To date cucurbiturils composed of 5, 6, 7, 8, 10, and 14 repeat units have all been isolated,[5][6] which have internal cavity volumes of 82, 164, 279, 479, and 870 Å3 respectively. A cucurbituril composed of 9 repeat units has yet to be isolated (as of 2009). Other common molecular capsules that share a similar molecular shape with cucurbiturils include cyclodextrins, calixarenes, and pillararenes.

Synthesis

Cucurbituril Synthesis

Cucurbiturils are amidals (less precisely aminals) and synthesized from urea 1 and a dialdehyde (e.g., glyoxal 2) via a nucleophilic addition to give the intermediate glycoluril 3. This intermediate is condensed with formaldehyde to give hexamer cucurbit[6]uril above 110 °C. Ordinarily, multifunctional monomers such as 3 would undergo a step-growth polymerization that would give a distribution of products, but due to favorable strain and an abundance of hydrogen bonding, the hexamer is the only reaction product isolated after precipitation.[5]

Decreasing the temperature of the reaction to between 75 and 90 °C can be used to access other sizes of cucurbiturils including CB[5], CB[7], CB[8], and CB[10]. CB[6] is still the major product; the other ring sizes are formed in smaller yields. The isolation of sizes other than CB[6] requires fractional crystallization and dissolution. CB[5], CB[6], CB[7], and CB[8] are all currently commercially available. The larger sizes are a particularly active area of research since they can bind larger and more interesting guest molecules, thus expanding their potential applications.

Crystal structure of the CB[10]·CB[5] complex including a chlorine anion.[7]

Cucurbit[10]uril is particularly difficult to isolate. It was first discovered by Day and coworkers in 2002 as an inclusion complex containing CB[5] by fractional crystallization of the cucurbituril reaction mixture.[7] The CB[10]·CB[5] was unambiguously identified by single crystal X-ray structural analysis that revealed the complex resembled a molecular gyroscope. In this case, the free rotation of the CB[5] within the CB[10] cavity mimics the independent rotation of a flywheel within the frame of a gyroscope.

Isolation of pure CB[10] could not be accomplished by direct separation methods since the compound has such a high affinity for CB[5]. The strong binding affinity for the CB[5] can be understood since it has a complementary size and shape to the cavity of the CB[10]. Pure CB[10] was isolated by Isaacs and coworkers in 2005 by introducing a more strongly binding melamine diamine guest that is capable of displacing the CB[5].[8] The melamine diamine guest was then separated from the CB[10] by reaction with acetic anhydride that converted the positively charged amine groups to neutrally charged amides. Cucurbiturils strongly bind cationic guests, but by removing the positive charge from the melamine diamine guest reduces the association constant to the point it can be removed by washing with methanol, DMSO, and water. The CB[10] has an unusually large cavity (870 Å3) that's free and capable of binding extraordinarily large guests including a cationic calix[4]arene.

Applications

Cucurbiturils have been used by chemists for various applications, including drug delivery, asymmetric synthesis, molecular switching, and dye tuning.

Supramolecular host molecules

Crystal structure of a host–guest complex with a p-xylylenediammonium bound within a cucurbit[6]uril[9]

Cucurbiturils are efficient host molecules in molecular recognition and have a particularly high affinity for positively charged or cationic compounds. High association constants with positively charged molecules are attributed to the carbonyl groups that line each end of the cavity and can interact with cations in a similar fashion to crown ethers. The affinity of cucurbiturils can be very high. For example, the affinity equilibrium constant of cucurbit[7]uril with the positively charged 1-aminoadamantane hydrochloride is experimentally determined at 4.23*1012.[10]

Host guest interactions also significantly influence solubility behavior of cucurbiturils. Cucurbit[6]uril dissolves poorly in just about any solvent but solubility is greatly improved in a solution of potassium hydroxide or in an acidic solution. The cavitand forms a positively charged inclusion compound with a potassium ion or a hydronium ion respectively which have much greater solubility than the uncomplexed neutral molecule.[11]

CB[10] is large enough to hold other molecular hosts such as a calixarene molecule. With a calixarene guest different chemical conformations (cone, 1,2-alternate, 1,3-alternate) are in rapid equilibrium. Allosteric control is provided when an adamantane molecule forces a cone conformation with a calixarene - adamantane inclusion complex within a CB[10] molecule.

Rotaxane macrocycles

Given their high affinities to form inclusion complexes cucurbiturils have been employed as the macrocycles component of a rotaxane. After formation of the supramolecular assembly or threaded complex with a guest molecule such as hexamethylene diamine the two ends of the guest can be reacted with bulky groups that will then act as a stoppers preventing the two separate molecules from dissociating.[12]

In another rotaxane system with a CB[7] wheel, the axle is a 4,4'-bipyridinium or viologen subunit with two carboxylic acid terminated aliphatic N-substituents at both ends.[13] In water at concentration higher than 0.5 mM complexation is quantitative without need of stoppers. At pH = 2 the carboxylic end-groups are protonated and the wheel shuttles back and forth between them as evidenced by the presence of just two aromatic viologen protons in the proton NMR spectrum. At pH = 9 the wheel is locked around the viologen center. More recently, rotaxane[14] with a CB[8] wheel was synthesized. This rotaxane can bind neutral guest molecules.

Drug delivery vehicles

Cucurbituril's host–guest properties have been explored for drug delivery vehicles.[15] The potential of this application has been explored with cucurbit[7]uril that forms an inclusion compound with the important cancer fighting drug oxaliplatin. CB[7] was employed despite the fact that it is more difficult to isolate since it has much greater solubility in water and its larger cavity size can accommodate the drug molecule. The resulting complex was found to have increased stability and greater selectivity that may lead to fewer side effects.[16]

Supramolecular catalysts

Cucurbiturils have also been explored as supramolecular catalysts. Larger cucurbiturils, such as cucurbit[8]uril can bind multiple guest molecules. CB[8] forms a complex 2:1 (guest:host) with (E)-diaminostilbene dihydrochloride which is accommodated by CB[8]'s larger internal diameter of 8.8 angstrom and height 9.1 angstrom.[17] The close proximity and optimal orientation of the guest molecules within the cavity enhances the rate of the photochemical cyclization to give cyclobutane dimer with a 19:1 stereoselectivity for the syn configuration when bound to CB[8]. In the absence of CB[8] the cyclization reaction does not occur, but only the isomerization of the trans isomer to the cis isomer is observed.[18][19]

Dye tuning

The dye-tuning capabilities cucurbiturils possess have been explored by researchers in recent years.[20][21][22][23] In general, it has been found that the confined, low-polarity environment provided by the cucurbiturils leads to enhanced brightness, increased photostability, increased fluorescence lifetimes, and solvatochromism consistent with moving to an environment of lower polarity.

Related compounds

Inverted cucurbiturils or iCB[x] are CB analogues with one glycoluril repeating unit inverted.[24] In this unit the methine protons actually point into the cavity and this makes the cavity less spacious. Inverted cucurbiturils form as a side-product in CB-forming reactions, with yields between 2 and 0.4%. Isolation of this type of CB compound is possible because it is more difficult to form inclusion compounds that ordinarily form with regular CBs. Inverted cucurbiturils are believed to be the kinetically controlled reaction products because the heating of iCB[6] in acidic medium results in a mixture of CB[5], CB[6] and CB[7] in a 24:13:1 ratio.

A cucurbituril cut in half along the equator is called a hemicucurbituril.

Systematic name

Cucurbit[6]uril's systematic name is dodecahydro-1H,4H,14H,17H-2,16:3,15-dimethano-5H,6H,7H,8H,9H,10H,11H,12H,13H,18H,19H,20H,21H,22H,23H,24H,25H,26H-2,3,4a,5a,6a,7a,8a,9a,10a,11a,12a,13a,15,16,17a,18a,19a,20a,21a,22a,23a,24a,25a,26a-tetracosaazabispentaleno[1''',6''':5'',6'',7'']cyclooctyl[1'',2'',3'':3',4']pentaleno(1',6':5,6,7)-cycloocta(1,2,3-gh:1',2',3'-g'h')cycloocta(1,2,3-cd:5,6,7-c'd')dipentalene-1,4,6,8,10,12,14,17,19,21,23,25-dodecone.[25][26]

References

  1. ↑ Review: The Cucurbit[n]uril Family Jason Lagona, Pritam Mukhopadhyay, Sriparna Chakrabarti, Lyle Isaacs Angewandte Chemie International Edition Volume 44, Issue 31, Pages 4844 - 4870 2005 Abstract
  2. ↑ Ueber Condensationsproducte aus Glycoluril und Formaldehyd, Robert Behrend, Eberhard Meyer, Franz Rusche, Justus Liebig's Annalen der Chemie 1905, 339, 1–37. doi:10.1002/jlac.19053390102
  3. ↑ Cucurbituril W. A. Freeman, W. L. Mock, and N.-Y. Shih J. Am. Chem. Soc., 1981, 103, 7367. Article
  4. ↑ Kim, Jaheon; Jung, In-Sun; Kim, Soo-Young; Lee, Eunsung; Kang, Jin-Koo; Sakamoto, Shigeru; Yamaguchi, Kentaro; Kim, Kimoon (2000). "New Cucurbituril Homologues: Syntheses, Isolation, Characterization, and X-ray Crystal Structures of Cucurbit[n]uril(n=5, 7, and 8)". Journal of the American Chemical Society 122 (3): 540–541. doi:10.1021/ja993376p. 
  5. ↑ 5.0 5.1 Cucurbituril Homologues and Derivatives: New Opportunities in Supramolecular Chemistry Acc. Chem. Res., 36 (8), 621 -630, 2003. ref
  6. ↑ Cheng, Xiao-Jie, et al. "Twisted Cucurbit[14]uril." Angewandte Chemie International Edition 52.28 (2013): 7252–7255. Web. doi:10.1002/ange.201210267
  7. ↑ 7.0 7.1 A Cucurbituril-Based Gyroscane: A New Supramolecular Form AnthonyI. Day, Rodney J. Blanch, Alan P. Arnold, Susan Lorenzo, Gareth R. Lewis, and Ian Dance Angew. Chem. Int. Ed.; 2002; 41(2) pp 275-277.
  8. ↑ Cucurbit[10]uril Simin Liu, Peter Y. Zavalij, and Lyle Isaacs J. Am. Chem. Soc.; 2005; 127(48) pp 16798 - 16799; (Communication) doi:10.1021/ja056287n Abstract
  9. ↑ Freeman, Wade A. (1984). "Structures of the p-xylylenediammonium chloride and calcium hydrogensulfate adducts of the cavitand 'cucurbituril', C36H36N24O12". Acta Crystallogr B 40 (4): 382–387. doi:10.1107/S0108768184002354. 
  10. ↑ Liu, Simin; Ruspic, Christian; Mukhopadhyay, Pritam; Chakrabarti, Sriparna; Zavalij, Peter Y.; Isaacs, Lyle (2005). "The Cucurbit[n]uril Family: Prime Components for Self-Sorting Systems". Journal of the American Chemical Society 127 (45): 15959–67. doi:10.1021/ja055013x. PMID 16277540. 
  11. ↑ U.S. Patent 6,365,734
  12. ↑ The complex formation of a, w-dicarboxylic acids and a, w-diols with cucurbituril and a-cyclodextrin. the first step to the formation of rotaxanes and polyrotaxenes of thepolyester type Hans-Jürgen Buschmann, Klaus Jansen, Eckhard Schollmeyer Acta Chim. Slov. 1999, 46(3), pp. 405-411 Article
  13. ↑ Sindelar, Vladimir; Silvi, Serena; Kaifer, Angel E. (2006). "Switching a molecular shuttle on and off: Simple, pH-controlled pseudorotaxanes based on cucurbit[7]uril". Chemical Communications (20): 2185–7. doi:10.1039/b601959e. PMID 16703149. 
  14. ↑ V. Ramalingam and A. R. Urbach, Org. Lett., 2011, 13, 4898
  15. ↑ Gu, Alice; Wheate, Nial (2021). "Macrocycles as drug-enhancing excipients in pharmaceutical formulations". Journal of Inclusion Phenomena and Macrocyclic Chemistry 100 (1–2): 55–69. doi:10.1007/s10847-021-01055-9. 
  16. ↑ Wheate, Nial; Limantoro, Christina (2016). "Cucurbit[n]urils as excipients in pharmaceutical dosage forms". Supramolecular Chemistry 28 (9–10): 849–856. doi:10.1080/10610278.2016.1178746. 
  17. ↑ A facile, stereoselective [2 + 2] photoreaction mediated by cucurbit[8]uril Sang Yong Jon, Young Ho Ko, Sang Hyun Park, Hee-Joon Kim and Kimoon Kim Chemical Communications, 2001, (19), 1938 - 1939 DOI Abstract
  18. ↑ Template directed photodimerization of trans-1,2-bis(n-pyridyl)ethylenes and stilbazoles in water Mahesh Pattabiraman, Arunkumar Natarajan, Raja Kaliappan, Joel T. Mague and V. Ramamurthy Chemical Communications, 2005, (36), 4542 - 4544 DOI Abstract Full Article
  19. ↑ Maddipatla, Murthy V. S. N.; Kaanumalle, Lakshmi S.; Natarajan, Arunkumar; Pattabiraman, Mahesh; Ramamurthy, V. (2007). "Preorientation of Olefins toward a Single Photodimer: Cucurbituril-Mediated Photodimerization of Protonated Azastilbenes in Water". Langmuir 23 (14): 7545–54. doi:10.1021/la700803k. PMID 17539667. 
  20. ↑ Koner L. et al., Supramolec. Chem. 2007, 19, 55-66.
  21. ↑ Nau W. M. et al., Int. J. Photoenergy 2005, 7, 133-141.
  22. ↑ Montes-Navajas P. et al., Chem. Phys. Chem. 2008, 9, 713-720.
  23. ↑ Shaikh J. et al., Photochem. & Photobiol. Sci. 2008, 7, 408-414.
  24. ↑ Isaacs, Lyle; Park, Sang-Kyu; Liu, Simin; Ko, Young Ho; Selvapalam, Narayanan; Kim, Youngkook; Kim, Hyunuk; Zavalij, Peter Y. et al. (2005). "The Inverted Cucurbit[nuril Family"]. Journal of the American Chemical Society 127 (51): 18000–1. doi:10.1021/ja056988k. PMID 16366540. https://figshare.com/articles/The_Inverted_Cucurbit_i_n_i_uril_Family/3249838. 
  25. ↑ Mono-, Oligo- und Polyrotaxane mit Cucurbituril und gemischte Polyrotaxane mit Cucurbituril und alpha-Cyclodextrin mittels Selbstorganisation Claudia Meschke 1999 Online German language
  26. ↑ "Cucurbit[6uril"] (in en). https://pubchem.ncbi.nlm.nih.gov/substance/312240448. 



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