# Patent

## Title
Pseudorotaxanes, rotaxanes and catenanes formed by metal ions templating

## Abstract

A pseudorotaxane, a rotaxane and a catenane are provided. The pseudorotaxane includes at least a macrocyclic host molecule, a guest molecule, and a metal ion. The host molecule contains at least a binding unit and an aromatic linking spacer. The guest molecule has at least a recognition unit. The metal ion is used to template the threading of the guest molecule through the macrocycle host molecule by coordinating to a binding pocket formed from the binding unit of the macrocycle and the recognition moiety of the guest molecule. Rotaxanes or catenanes can be synthesized from the pseudorotaxane complexes, with or without the metal template ion in their molecular structures.

## Background
BACKGROUND
1. Technical Field
The disclosure relates to a host-guest complex or an interlocked molecule, especially a pseudorotaxane, a rotaxane or a catenane.
2. Description of Related Art
to Pseudorotaxanes, rotaxanes and catenanes are becoming increasingly important materials for gelation, drug delivery, and molecular electronics; therefore, efforts continue toward developing new threading systems and new methods to synthesize these intertwined and interlocked molecules. Although many elegant interlocked molecular compounds and threaded supramolecular complexes have been prepared in the past two decades, the number of recognition motifs that can be exploited for the preparation of these systems remains limited. This difficulty arises mainly from the limited ability to incorporate suitable recognition units in an appropriate arrangement in the molecular structures of the host and guest components, so that weak noncovalent interactions can collaborate together to stabilize the resulting pseudorotaxane complexes. In addition, the lack of structural flexibility of the recognition units that can form pseudorotaxane complexes hinders the application of unique functions or structures into already practically used materials and/or biologically important (macro)molecules, many of which do not contain the necessary, suitably arranged recognition units in their native molecular structures.
SUMMARY
Accordingly, in one aspect, the present invention is directed to a pseudorotaxane complex, a rotaxane molecule, or a catenane molecule. In the complex or molecule, the recognition moiety of a guest molecule used for the host-guest assembly can contain only a simple functional group, such as a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine group.
The pseudorotaxane complex comprises at least a host molecule, a guest molecule, and a metal ion. The host molecule has a macrocyclic structure comprising at least a binding unit and an aromatic linking spacers. The binding unit can be an oligo(ethylene glycol) group, or a 2,6-bis(hydroxymethyl)pyridine group. The guest molecule has at least a recognition moiety, such as an urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group, or a 2,6-bis(hydroxymethyl)pyridine group. The metal ion coordinates to the binding unit of the host molecule and the recognition moiety of the guest molecule.
According to an embodiment of this invention, the host molecule further comprises a binding assistant unit, such as an oligo(ethylene glycol) group, a 2,6-bis(hydroxymethyl)pyridine, a 2,2′-oxy-di(ethanethiol) group, a 1,3-bis(iminomethyl)benzene group or a 2,6-bis(iminomethyl)pyridine group.
According to another embodiment, the aromatic linking spacer can be a p-xylenyl group or a 2,6-lutidinyl group.
According to yet another embodiment, the host molecule can be










According to yet another embodiment, the guest molecule contains at least a glycine, a repeating unit of kevlar, or a repeating unit of nylon-6,6.
According to yet another embodiment, the metal ion is Li+, Na+ or K+.
The rotaxane molecule or the catenane molecule comprises the host molecule(s) above and the guest molecule(s) above.
The rotaxane molecule or the catenane molecule also can comprise the reduced amine form(s) of the imine host molecule(s) above and the guest molecule(s) above, i.e.




or





Accordingly, a new molecular recognition system has been discovered. In this new recognition system, a single recognition moiety of a threaded guest molecule can be recognized by a host molecule via a templating metal ion.
The foregoing presents a simplified summary of the disclosure in order to provide a basic understanding to the reader. This summary is not an extensive overview of the disclosure and it does not identify key/critical elements of the present invention or delineate the scope of the present invention. Its sole purpose is to present some concepts disclosed herein in a simplified form as a prelude to the more detailed description that is presented later. It is to be understood that both the foregoing general description and the following detailed description are by examples, and are intended to provide further explanation of the invention as claimed.



BRIEF DESCRIPTION OF THE DRAWINGS
FIGS. 1A-1B are diagrams of the interaction between the host molecule, the guest molecule having a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine group and the metal ion.
FIG. 2 containing spectra 2A to 2F, and spectrum 2A is 1H NMR spectrum (400 MHz, CDCl3, 298 K) of the threadlike urea 1; spectrum 2B is 1H NMR spectrum (400 MHz, CDCl3, 298 K) of an equimolar mixture of urea 1 and MC1 (5 mM); spectra 2C-2F are 1H NMR spectra (400 MHz, CDCl3, 298 K) of mixtures of urea 1, MC1, and NaTFPB at concentrations of 5/5/5 mM, 5/10/10 mM, 5/15/15 mM, and 5/20/20 mM, respectively.
FIGS. 3A and 3B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 1, respectively.
FIGS. 4A and 4B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298K) spectra of rotaxane 2, respectively.
FIGS. 5A and 5B are 1H NMR (400 MHz, CD3CN, 298 K) and 13C NMR (100 MHz, CD3CN, 298 K) spectra of rotaxane 3, respectively.
FIGS. 6A and 6B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 4, respectively.
FIGS. 7A and 7B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 7, respectively.
FIGS. 8A and 8B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 8, respectively.
FIGS. 9A and 9B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 10, respectively.
FIGS. 10A and 10B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 12, respectively.
FIGS. 11A and 11B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 14, respectively.
FIGS. 12A and 12B are 1H NMR (400 MHz, CD3COCD3, 298 K) and 13C NMR (100 MHz, CD3COCD3, 298 K) spectra of rotaxane 17, respectively.
FIG. 13 is the solid state structure of rotaxane 16
FIGS. 14A and 14B are 1H NMR (400 MHz, CD3COCD3, 298 K) and 13C NMR (100 MHz, CD3COCD3, 298 K) spectra of rotaxane 18, respectively.
FIGS. 15A and 15B are 1H NMR (400 MHz, CD3COCD3, 298 K) and 13C NMR (100 MHz, CD3COCD3, 298 K) spectra of rotaxane 19, respectively.
FIGS. 16A and 16B are 1H NMR (400 MHz, CD3COCD3, 298 K) and 13C NMR (100 MHz, CD3COCD3, 298 K) spectra of rotaxane 20, respectively.
FIGS. 17A and 17B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 21, respectively.
FIGS. 18A and 18B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 23, respectively.
FIG. 19 containing spectra 19A-19C, and spectra 19A-19C are the partial 1H NMR spectra (400 MHz, CDCl3, 298 K) displaying the formation of catenane 1 from an mixture of DAM1, DAD1, and NaTFPB (20 mM:20 mM:10 mM) for 0, 0.33, and 3 h, respectively.
FIGS. 20A and 20 B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CD3OD, 298 K) spectra of catenane 2, respectively.
FIGS. 21A and 21B are 1H NMR (400 MHz, CD3CN, 298 K) and 13C NMR (100 MHz, CD3CN, 298 K) spectra of catenane 4, respectively.
FIGS. 22A and 22 B are 1H NMR (400 MHz, CD3CN, 298 K) and 13C NMR (100 MHz, CD3CN, 298 K) spectra of catenane 6, respectively.
FIGS. 23A and 23B are 1H NMR (400 MHz, CD3CN, 298 K) and 13C NMR (100 MHz, CD3CN, 298 K) spectra of catenane 8, respectively.
FIGS. 24A and 24 B are 1H NMR (400 MHz, CDCl3, 298 K) and 13C NMR (100 MHz, CDCl3, 298 K) spectra of rotaxane 25, respectively.



DETAILED DESCRIPTION
In the following detailed description, for purposes of explanation, numerous specific details are set forth in order to provide a thorough understanding of the disclosed embodiments. It will be apparent, however, that one or more embodiments may be practiced without these specific details.
Pseudorotaxanes, Rotaxanes or Catenanes
In one aspect, a pseudorotaxane complex, a rotaxane or a catenane is provided. The pseudorotaxane complex comprises at least a host molecule, a guest molecule, and a metal ion. The rotaxanes and catenanes both comprise a host molecule and a guest molecule, and the guest molecule of the catenanes having a macrocyclic structure.
The host molecule has a macrocyclic structure. The macrocyclic structure has at least a binding unit and at least an aromatic linking spacer. The binding unit can be an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine. The aromatic linking spacer can be a p-xylenyl group or a 2,6-lutidinyl group. Optionally, the macrocyclic structure can further has a binding assistant unit, such as an oligo(ethylene glycol) group, a 2,6-bis(hydroxymethyl)pyridine, a 2,2′-oxy-di(ethanethiol) group, a 1,3-bis(iminomethyl)benzene group, a 1,3-bis(aminomethyl)benzene group, a 2,6-bis(iminomethyl)pyridine group, or a 2,6-bis(aminomethyl)pyridine group. For example, the macrocyclic host molecule can has one binding unit, one binding assistant unit, and two linking spacers respectively disposed between the binding unit and the binding assistant unit to respectively link the binding unit and the binding assistant unit. According to an embodiment, some examples of the host molecule are listed in table 1 below.







TABLE 1





Some examples of the host molecule.






















MC1



 







MC2



 







MC3



 







MC4



 







MC5



 







MC6



 







MC7



 







MC8



 







MC9



 







MC10



 







MC11



 







MC12










The guest molecule has at least a recognition moiety, such as a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group, or a 2,6-bis(hydroxymethyl)pyridine group.
The metal ion is used to template the threading of the guest molecule above through the macrocycle by coordinating to a binding pocket formed from the binding unit of the macrocyclic host molecule and the recognition moiety of the guest molecule. According to an embodiment, the metal ion can be an alkali metal ion, such as Li+, Na+ or K+. For example, the binding pocket can be formed from the oligo(ethylene glycol) moiety of the macrocyclic host molecule, and the carbonyl (C═O) group or the ether (—CH2—O—CH2—) group of the guest molecule.
The interactions between the host molecule, the guest molecule, and the metal ion are shown in FIG. 1A and FIG. 1B. For better and easier illustrating the interactions between the host molecule, the guest molecule, and the metal ion, the binding unit is presented by




the binding assistant unit is abbreviated as BAU, and the two linking spacers are abbreviated as LS1 and LS2 in FIGS. 1A and 1B.

In FIG. 1A the guest molecule has a urea group, a carbamate group, or an amide group. In FIG. 1B, the guest molecule has an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine group. In FIG. 1A or 1B, the metal ion is used to template the threading of the guest molecule through the macrocycle by coordinating to the binding pocket formed from the oligo(ethylene glycol) moiety or the 2,6-bis(hydroxymethyl)pyridine moiety of the macrocycle, and the C═O group (FIG. 1A), the ether group (FIG. 1B) or the 2,6-bis(hydroxymethyl)pyridine (FIG. 1B) of the guest. In addition, [N—H . . . O] or [N—H . . . N] hydrogen bonds formed between the NH proton of the recognition moiety (i.e. the urea group, the carbamate group, or the amide group) to the oxygen or nitrogen atom in the binding assistant unit (BAU in FIGS. 1A and 1B), may help to further stabilize the structure of the pseudorotaxane complexes.
Some examples of the pseudorotaxane complexes and the interlocked molecules, such as rotaxanes and catenanes, are described below. The formation of the pseudorotaxane complexes in solution is proven by the successful synthesis of the corresponding rotaxanes or catenanes. For synthesizing a rotaxane molecule, a stoppering agent is used to interlock the host molecule to prevent its dethreading from the guest component. In the examples below, some stoppering agents were used, and are listed in table 2 below.







TABLE 2





Stoppering agent




















SA1


 






SA2


 






SA3


 






SA4


 






SA5


 






SA6


 






SA7









A rotaxane or a catenane can also be synthesized through the self-assembly process, in which the recognition site of the guest molecule was encircled by the macrocycle preformed or in situ generated from the imine formation reaction of a dialdehyde and a diamine via the templating of metal ion. In the examples below, some dialdehydes and diamines were used and are listed in table 3 below.







TABLE 3







Daldehydes and diamines used for the construction of


catenanes










Dialdehydes
Diamines










 DAD1



 DAM1



 






 DAD2



 DAM2










Embodiment 1
Guest Molecules Containing a Urea Group
Example 1
Urea 1




In this example, urea 1 having a urea group conjugated to two aromatic rings was used as the guest molecule. MC1 was used as the host molecule. Since the hydrogen bonding between urea 1 and MC1 and the ion-dipole interaction between both of them and the metal ion template would both prefer less-polar solvents, sodium tetrakis(3,5-trifluoromethylphenyl)borate (NaTFPB) was chosen as the templating salt because of its relatively weak ion-pairing tendency in such solvents. The chemical structure of NaTFPB is shown below.




Urea 1, MC1, and NaTFPB were mixed in various molar ratios in CDC3 for measuring 1H NMR spectra. The obtained 1H NMR spectra are shown in spectra 2C-2F in FIG. 2, respectively. In addition, the 1H NMR spectra of urea 1 as well as an equimolar mixture of urea 1 and MC1 are also shown in spectra 2A and 2B in FIG. 2 for comparison.
First, spectra 2B and 2C in FIG. 2 are compared. Spectrum 2B is the 1H NMR spectra of equimolar mixture of urea 1 and MC1 at a concentration of 5 mM. In spectrum 2C, additional 5 mM NaTFPB was added to the CDCls solution. It can be clearly seen that the NMR signals of the urea 1 (marked by Ha, Hb, and —CO—NH—, respectively) underwent significant shifts before and after adding NaTFPB. This observation suggested that the efficient threading of urea 1 through MC1 required the templating of Na+ ions, and the rates of complexation and decomplexation were both fast on the 1H NMR spectroscopic timescale at 400 MHz and 298 K. The downfield shift of the signal of the NH protons and the respective upfield and downfield shifts of those aromatic protons Ha and Hb upon gradually increasing the concentrations of MC1 and NaTFPB from 5 mM to 20 mM is consistent with the formation of a pseudorotaxane between the host and guest components under these conditions.
The downfield shift of the NMR signal of the NH protons can be explained by the formation of [N—H . . . O] hydrogen bonds between the NH protons of the urea moiety and the oxygen atoms of the diethylene glycol segment. The respective upfield and downfield shifts of the signals of the protons Ha and Hb can be explained by the concomitant shielding and deshielding of the protons Ha and Hb by the p-xylene motifs of the MC1.
Example 2
Urea 2







In this example, urea 2 having a urea group conjugated to two aromatic rings was used as the guest molecule. NaTFPB was used as the templating salt. SA1 was used as the stoppering agent. MC1, MC2 and MC3 were respectively used as the host molecule. Di-n-butyltin dilaurate (DBTDL) was used as a catalyst for capping the SA1 to the urea 2. For preparing the rotaxanes 1-3, a CH2Cl2 solution containing urea 2, NaTFPB, one of the host molecules, and DBTDL was added with SA1, and then stirred at ambient temperature for 16 hours.
The macrocycle interlocked in rotaxane 2 is MC2, in which the two diethylene glycol motifs in MC1 were replaced by a triethylene glycol and a 2,6-bis(hydroxymethyl)pyridine units. The higher yield in the synthesis of rotaxane 2 compared to the one of rotaxane 1, suggested that the 2,6-bis(hydroxymethyl)pyridine unit is a more preorganized and better chelating motif, which energetically overcomes the increasing structural flexibility introduced by the triethylene glycol unit in the host-guest complexation.
MC3, in which two oxygen atoms in the diethylene glycol moiety of MC1 were replaced by sulfur atoms, gave significantly lower yield in the synthesis of its interlocked rotaxane 3. This result may due to the relative flexible molecular structure and the weaker interaction of its binding assistant unit (BAU) to the NH proton of the guest molecule of MC3. Nevertheless, with the assistance from the Na+ ion template, MC3 and urea 2 still can form pseudorotaxane complexes in solution and the corresponding rotaxane 3 was isolated in 9% yield.
The observation of no signal corresponding to TFPB anion in the 1H NMR spectra of the [2]rotaxane 1-3, suggested the templating Na ion was completely removed during the aqueous extraction and chromatography process. This result also suggested that the complexation of the Na+ ion to the binding pocket in the [2]rotaxanes was not particularly strong under these conditions. The bulky terminal groups of the threaded guest, however, prevent the dethreading of the interlocked macrocycle even after the loss of the metal ion template.
The 1H NMR and 13C NMR spectra of rotaxanes 1, 2 and 3 are shown in FIGS. 3, 4 and 5, respectively. All related spectral data are listed below.
rotaxane 1: M.p. 126-127° C.; 1H NMR (400 MHz, CDCl3): δ=1.30 (s, 18H), 1.36 (s, 18H), 3.49-3.70 (m, 16H), 4.27 (d, J=11.2 Hz, 1H), 4.28 (d, J=11.2 Hz, 1H), 5.06 (s, 2H), 6.72 (d, J=8 Hz, 2H), 6.78 (s, 1H), 6.83-6.91 (m, 12H), 7.03 (s, 1H), 7.09-7.14 (m, 4H), 7.26 (s, 1H); 13C NMR (100 MHz, CDCl3): δ=31.4, 31.6, 34.9, 34.9, 66.6, 68.7, 70.6, 73.2, 113.0, 114.4, 115.9, 117.1, 119.0, 128.1, 128.1, 128.8, 136.3, 137.3, 138.7, 138.9, 150.2, 151.2, 153.2 (one signal is missing, possibly because of signal overlap). HRMS (ESI): m/z [M+H]+: C61H83N3O9, calcd. 1002.6208. found 1002.6233; [M+Na]+: C61H83N3O9Na calcd. 1024.6027. found 1024.6011.
rotaxane 2: 1H NMR (400 MHz, CDCl3, 298 K): δ=1.31 (s, 18H), 1.33 (s, 18H), 3.33-3.50 (m, 4H), 3.61-3.70 (m, 8H), 4.38 (s, 4H), 4.52 (d, J=5.6 Hz, 4H), 4.56 (d, J=1.6 Hz, 4H), 4.91 (s, 2H), 6.73 (d, J=8.4 Hz, 2H), 6.86 (d, J=8.4 Hz, 2H), 7.00-7.10 (m, 9H), 7.12 (d, J=1.6 Hz, 1H), 7.18 (d, J=1.6 Hz, 2H), 7.30 (s, 2H), 7.40 (d, J=7.6 Hz, 2H), 7.46 (s, 1H), 7.57 (s, 1H), 7.63 (b, 1H), 7.76 (t, J=7.6 Hz, 1H); 13C NMR (100 MHz, CDCl3, 298 K): δ=31.4, 31.5, 34.8, 34.8, 66.5, 69.0, 70.6, 70.9, 71.8, 73.0, 112.9, 113.2, 116.0, 117.1, 118.1, 120.6, 127.7, 128.2, 128.3, 128.4, 136.0, 137.4, 137.7, 137.7, 139.1, 139.2, 151.0, 151.5, 151.7, 153.7, 157.6 (one signal is missing, possibly because of signal overlapping); HR-MS (ESI): calcd for C61H87N4O9+ [M+H]+, m/z 1079.6468. found, m/z 1079.7648.
rotaxane 3: 1H NMR (400 MHz, CD3CN): δ=1.29 (s, 18H), 1.35 (s, 18H), 2.43-2.58 (m, 4H), 3.43-3.57 (m, 8H), 3.68-3.79 (m, 8H), 4.30 (s, 4H), 4.90 (s, 4H), 6.88 (d, J=8.2 Hz, 2H), 6.94 (d, J=8.0 Hz, 2H), 7.03 (d, J=8.5 Hz, 2H), 7.07-7.14 (m, 4H), 7.19-7.24 (m, 3H), 7.28-7.35 (m, 3H), 7.70 (br s, 1H); 13C NMR (100 MHz, CD3CN): δ=30.1, 31.7, 31.8, 35.6, 35.6, 35.9, 69.9, 70.4, 71.6, 73.8, 113.8, 114.0, 116.5, 118.8, 128.7, 129.2, 129.3, 130.2, 136.6, 138.6, 138.6, 139.2, 140.5, 140.6, 151.7, 151.9, 152.0, 154.3 ppm (one signal is missing, possibly because of overlapping); HRMS(ESI): calcd for C61H83N3O7S2Na+ [M+Na]+, m/z 1056.5570. found, m/z 1056.5595.
In addition, another comparative experiment was done under a condition similar to the one used in the synthesis of rotaxane 1, but without the addition of NaTFPB. The 1H NMR spectrum of the crude product displayed no detectable signals corresponding to rotaxane 1, which indicated that the Na+ ion template is crucial for efficiently threading the urea unit through the cavity of MC1.
Example 3
Urea 3




In this example, urea 3 having a urea group conjugated to two aromatic rings was used as the guest molecule and SA2 was used as the stoppering agent, because the 3,5-di-t-butylphenyl group in urea 2 and SA1 is not sterically bulky enough to prevent the dethreading of MC4. NaTFPB was used as the templating salt. DBTDL was used as a catalyst for capping the SA2 to the urea 3. For preparing the rotaxanes 4, a CH2Cl2 solution containing urea 3, NaTFPB, MC4, and DBTDL was added with SA2, and stirred at ambient temperature for 16 hours.
The macrocycle interlocked in rotaxane 4 is MC4, which different to MC1 is by replacing one of its diethylene glycol chains with a triethylene glycol one. The large terminal groups are required to prevent the dethreading of MC4. The lower yield in the synthesis of rotaxane 4 simply reflected that MC4 is a more flexible and less preorganized host for such a Na+ ion templating host-guest complexation system, even it contains one more oxygen atom for the N—H groups in urea 3 to interact with. Nevertheless, with the assistance from the Na+ ion template, MC4 and urea 3 still can form pseudorotaxane complexes in solution and rotaxane 4 was isolated in 13% yield.
The 1H NMR and 13C NMR spectra of rotaxane 4 are shown in FIGS. 6A and 6B, respectively. All related spectral data are listed below.
rotaxane 4: 1H NMR (400 MHz, CD3COCD3): δ=1.30 (s, 27H), 1.32 (s, 27H), 3.40-3.45 (m, 4H), 3.54-3.59 (m, 8H), 3.61 (s, 4H), 3.66-3.70 (m, 4H), 4.29-4.40 (m, 8H), 5.01 (s, 2H), 6.94-7.04 (m, 10H), 7.08 (d, J=8.8 Hz, 2H), 7.11-7.20 (m, 14H), 7.24 (d, J=8.4 Hz, 2H), 7.30-7.37 (m, 14H), 7.39 (d, J=8.8 Hz, 2H), 7.54 (s, 1H), 7.70 (s, 1H), 8.53 (s, 1H); 13C NMR (100 MHz, CDCl3): δ=31.4, 31.4, 34.3, 34.3, 63.2, 66.8, 68.8, 69.3, 70.6, 70.7, 70.9, 73.2, 117.1, 118.1, 124.0, 124.0, 127.7, 127.8, 127.9, 128.6, 128.8, 130.7, 130.8, 131.3, 131.8, 135.8, 136.7, 136.8, 137.2, 139.6, 140.5, 142.2, 143.9, 144.2, 148.2, 148.3, 151.4, 153.6; HRMS (ESI): m/z [M+Na]+: C109H131N3O10Na cal. for 1664.9732. found 1664.9727.
Example 4
Urea 4
In this example, urea 4 having a urea group conjugated to one aromatic ring was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA1 was used as the stoppering agent. For preparing the rotaxane 5, a CH2Cl2 solution containing urea 4, NaTFPB and MC1 was added SA1 and stirred at ambient temperature for 16 hours.




All related spectral data of rotaxane 5 are listed below.
rotaxane 5: M.p. 120-121° C.; 1H NMR (400 MHz, CDCl3): 8=1.34 (s, 36H), 3.50 (s, 16H), 3.60-3.70 (br, 4H), 4.30 (s, 8H), 4.74-4.82 (br, 2H), 6.66-6.71 (br, 2H), 6.84 (s, 4H), 7.06 (s, 8H), 7.10 (s, 2H), 7.27 (s, 4H); 13C NMR (100 MHz, CDCl3): δ=31.6, 35.0, 43.3, 68.7, 70.6, 73.4, 114.0, 116.4, 127.1, 129.0, 136.7, 137.4, 139.0, 151.2, 155.3; HRMS (ESI): m/z [M+H]+: C62H87N4O8, calcd. 1015.6511. found 1015.6523; [M+Na]+: C62H86N4O8Na calcd. 1037.6343. found 1037.6317.
Example 5
Urea 5
In this example, urea 5 having a urea group conjugated to no aromatic rings was used as the guest molecule. NaTFPB was used as the templating salt. MC1 or MC5 was used as the host molecule. SA1 was used as the stoppering agent. DBTDL was used as a catalyst for capping the SA1 to the urea 5. For preparing the rotaxanes 6 and 7, a CH2Cl2 solution containing urea 5, NaTFPB, one of the host molecules, and DBTDL was added with SA1 and stirred at ambient temperature for 16 hours.




All related spectral data of rotaxane 6 and 7 are listed below. The 1H and 13C NMR spectra of rotaxane 7 were shown in FIGS. 7A and 7B, respectively.
Rotaxane 6: M.p. 113-114° C.; 1H NMR (400 MHz, CDCl3): δ=0.77 (t, J=5.6 Hz, 2H), 1.32 (s, 18H), 1.34 (s, 18H), 1.92-2.00 (br, 2H), 3.19 (t, J=5.2 Hz, 2H), 3.40-3.59 (m, 16H), 4.29 (s, 8H), 4.33 (d, J=5.2 Hz, 2H), 4.40-4.46 (s, 1H), 5.29-5.34 (s, 1H), 7.07 (d, J=1.6 Hz, 1H), 7.14 (s, 8H), 7.20 (s, 2H), 7.31 (J=1.2 Hz, 1H), 7.37 (s, 2H), 7.80-7.84 (br, 1H); 13C NMR (100 MHz, CDCl3): δ=27.8, 31.5, 31.5, 34.8, 34.9, 37.4, 45.2, 63.6, 68.9, 70.5, 73.5, 112.7, 116.2, 121.2, 122.8, 129.1, 137.0, 138.7, 139.1, 150.9, 151.3, 153.3, 158.0; HRMS (ESI): m/z [M+H]+: C58H86N3O9 calcd. 968.6364. found 968.6343; [M+Na]+: C58H86N3O9Na calcd. 990.6184. found 990.6158.
Rotaxane 7: 1H NMR (400 MHz, CD3COCD3, 298 K): δ=0.80 (t, J=6.4 Hz, 2H), 1.30 (s, 18H), 1.31 (s, 18H), 2.27-2.35 (m, 2H), 3.27 (t, J=6.4 Hz, 2H), 3.55-3.66 (m, 8H), 4.12 (d, J=5.4 Hz, 2H), 4.35 (s, 4H), 4.52 (s, 4H), 4.55 (s, 4H), 4.82 (s, 1H), 5.47 (t, J=5.2 Hz, 1H), 7.11 (t, J=1.7 Hz, 1H), 7.16-7.19 (m, 10H), 7.35-7.40 (m, 5H), 7.77 (t, J=7.8 Hz, 1H), 8.49 (s, 1H); 13C NMR (100 MHz, CD3COCD3, 298 K): δ=31.8, 31.9, 35.3, 35.4, 37.4, 45.2, 63.6, 69.9, 71.2, 72.1, 73.3, 73.7 (one signal is missing possibly because of signal overlapping), 113.4, 116.7, 121.2, 121.5, 123.2, 129.4, 129.5, 137.9, 138.3, 138.5, 140.2, 140.9, 151.3, 151.8, 154.0, 158.4, 158.5; HR-MS (ESI): calcd for C61H84N4NaO8+ [M+Na]+, m/z 1023.6181. found, m/z 1023.6158.
The urea groups in urea 2, 4 and 5, were conjugated to two, one and zero aromatic rings, respectively. The yields of the corresponding rotaxanes 1, 5, and 6 were 40%, 25%, and 8%, respectively. This result may be explained by the acidity enhancement of the urea NH groups when conjugated to more aromatic rings, which increases the stability and concentration of the pseudorotaxanes in solution and thus, increases the synthetic efficiency of the corresponding rotaxanes.
Embodiment 2
Guest Molecule Containing a Carbamate Group
Example 6
Carbamate 1




In this example, carbamate 1 having a carbamate group conjugated to one aromatic ring by its NH motif was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA1 was used as the stoppering agent. DBTDL was used as a catalyst for capping the SA1 to the carbamate 1. For preparing the rotaxane 8, a CH2Cl2 solution containing carbamate 1, NaTFPB, DBTDL and MC1 was added SA1 and stirred at ambient temperature for 16 hours.
Possibly because the conjugation to aromatic ring increases the acidity of the NH moiety of the carbamate group, pseudorotaxanes formed from carbamate 1, MC1 and NaTFPB were relatively stable in solution, and the yield of rotaxane 8 was up to 34%.
The 1H NMR and 13C NMR spectra of rotaxane 8 are shown in FIGS. 8A and 8B, respectively. All related spectral data are listed below.
rotaxane 8: 1H NMR (400 MHz, CDCl3): δ=0.69-0.75 (m, 2H), 1.15-1.21 (m, 4H), 1.37 (s, 36H), 3.18 (t, J=6 Hz, 2H), 3.56-3.70 (m, 16H), 4.32 (d, J=10.4 Hz, 4H), 4.36 (d, J=10.4 Hz, 4H), 7.10 (t, J=1.6 Hz, 1H), 7.13 (t, J=1.6 Hz, 1H), 7.17 (s, 8H), 7.42 (d, J=1.6 Hz, 2H), 7.54 (d, J=1.6 Hz, 2H), 7.85 (s, 1H), 7.98 (s, 1H); 13C NMR (100 MHz, CDCl3): 6=23.3, 31.5, 31.5, 33.3, 34.9, 34.9, 63.5, 68.9, 70.5, 73.4, 112.1, 113.5, 116.0, 116.6, 129.0, 136.9, 138.5, 138.7, 150.8, 151.0, 153.3, 171.3 (one signal is missing possibly because of signal overlapping); HRMS (ESI): m/z [M+H]+: C58H85N2O10 calcd. 969.6204. found 969.6185; [M+Na]+: C58H84N2O10Na calcd. 991.6024. found 991.6011.
Example 7
Carbamate 2




In this example, carbamate 2 having a carbamate group conjugated to no aromatic ring was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA3 was used as the stoppering agent. For preparing the rotaxane 9, a sticky liquid obtained from concentrating a CH2Cl2 solution containing MC1, NaTFPB and carbamate 2 was added SA3 (in neat), and stirred at ambient temperature until solidified.
Since the carbamate group in carbamate 2 is not conjugated to any aromatic rings, its NH moiety in less acidic and the synthesis of rotaxane 9 is less efficient in solution. This problem was resolved by concentrating a CH2Cl2 solution mixture of MC1, NaTFPB and carbamate 2 to afford a neat mixture containing the corresponding pseudorotaxane and reacting it with SA3 under solvent-free condition. Rotaxane 9 can be isolated in 10% yield by using this approach.
All related spectral data of rotaxane 9 are listed below.
rotaxane 9: 1H NMR (400 MHz, CDCl3): δ=0.98-1.08 (m, 2H), 1.33 (s, 36H), 3.35 (t, J=6.8 Hz, 4H), 3.39-3.51 (m, 16H), 4.13 (d, J=2.4 Hz, 4H), 4.30 (s, 8H), 5.60 (t, J=5.6 Hz, 2H), 7.11 (s, 12H), 7.31 (s, 2H); 13C NMR (100 MHz, CDCl3): δ=31.6, 34.9, 45.8, 61.6, 68.5, 70.2, 73.1, 121.2, 122.6, 128.6, 137.0, 137.6, 150.7, 156.1 (one signal is missing, possibly because of signal overlap); HRMS (ESI): m/z [M+H]+ C59H87N2O10 calcd. 983.6361. found 983.6397; [M+Na]+: C59H86N2O10Na calcd. 1005.6180. found 1005.6199.
Embodiment 3
Guest Molecules Containing at Least One Amide Group
Example 8
Amide 1




In this example, guest amide 1 has an amide group conjugated to two aromatic rings and represents a repeating unit of a para-aramid synthetic fiber, Kevlar. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA4 was used as the stoppering agent. Diisopropylethylamine (DIPEA) was used as a base to remove the HCl generated during the reaction. For preparing the rotaxane 10, a CH2Cl2 solution mixture of amide 1, NaTFPB, MC1 and DIPEA was added with SA4 and stirred at ambient temperature for 16 hours.
Due to the Kevlar polymer was synthesized by reacting monomers 1,4-phenylene-diamine and terephthaloyl chloride in solution, SA4 was chosen as the stoppering agent to react with the aniline of amide 1 to mimic the polymerization process of the Kevlar polymer. The isolation of rotaxane 10 is suggested that such a Na+ ion templating host-guest recognition system can be used to generate pseudorotaxanes or rotaxanes from the polymer without alternating much of its synthetic process. The low yield (3%) of rotaxane 10 can be rationalized by the release of the chloride anions during the reaction progress, which destabilized the pseudorotaxane intermediate by weakening the metal ion chelating and/or hydrogen bonding interactions among the components.
The 1H NMR and 13C NMR spectra of rotaxane 10 are shown in FIGS. 9A and 9B, respectively. All related spectral data are listed below.
rotaxane 10: 1H NMR (400 MHz, CDCl3): δ=1.42 (s, 36H), 3.50-3.60 (m, 8H), 3.61-3.69 (m, 8H), 4.22 (s, 8H), 6.84 (s, 8H), 7.13 (s, 4H), 7.56 (t, J=1.6 Hz, 2H), 7.73 (d, J=1.6 Hz, 4H), 8.36 (s, 2H); 13C NMR (100 MHz, CDCl3): δ=31.5, 35.1, 69.0, 70.6, 73.4, 120.4, 121.7, 124.9, 127.9, 133.7, 136.1, 136.2, 150.7, 165.9; HRMS (ESI): m/z [M]+: C60H80N2O8 calcd. 956.5914. found 956.5902.
Example 9
Amide 2




In this example, amide 2 having its NH moiety conjugated to an aromatic ring was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA1 was used as the stoppering agent. DBTDL was used as a catalyst for capping the SA1 to the amide 2. For preparing the rotaxane 11, a CH2Cl2 solution containing amide 2, NaTFPB, MC1 and DBTDL was added SA1 and stirred at ambient temperature for 16 hours.
Characterization data for rotaxane 11: M.p. 176-177° C.; 1H NMR (400 MHz, CDCl3): δ=0.70-0.76 (m, 2H), 1.17-1.21 (m, 2H), 1.37 (s, 36H), 3.18 (t, J=6 Hz, 2H), 3.58-3.70 (m, 16H), 4.33 (d, J=10.4 Hz, 4H), 4.36 (d, J=10.4 Hz, 4H), 7.10 (t, J=1.6 Hz, 1H), 7.13 (t, J=1.6 Hz, 1H), 7.17 (s, 8H), 7.42 (d, J=1.6 Hz, 2H), 7.54 (d, J=1.6 Hz, 2H), 7.83-7.88 (br, 1H), 7.97-8.00 (br, 1H); 13C NMR (100 MHz, CDCl3): δ=23.2, 31.5, 31.5, 33.3, 34.9, 34.9, 63.5, 68.9, 70.5, 73.4, 112.1, 113.5, 116.0, 116.6, 129.0, 136.9, 138.5, 138.7, 150.8, 151.0, 153.3, 171.3; HRMS (ESI): m/z [M+H]+: C57H83N2O9 calcd. 939.6099. found 939.6062.
Example 10
Amide 3




In this example, amide 3 having its carbonyl moiety conjugated to an aromatic ring was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA1 or SA5 was used as the stoppering agent. DBTDL was used as a catalyst for capping the SA1 to the amide 3. For preparing the rotaxane 12 or 13, a CH2Cl2 solution containing amide 3, NaTFPB, MC1 and DBTDL was added SA1 or SA5, and stirred at ambient temperature for 16 hours.
The amide groups in amides 2 and 3 have their N—H and carbonyl motif to attached directly to the aromatic ring, respectively. The higher yield in the synthesis of rotaxane 11 compared to the one of rotaxane 12 is likely to because of the aromatic conjugation, which makes the NH proton in amide 2 more acidic than the one in amide 3 and thus, enhanced its complexation to MC1.
The successful synthesis of rotaxane 13 by using SA5 as the stoppering reagent, eliminates the possibility that threading the carbonyl group of SA1 into the cavity of the macrocycle in the presence of a templating Na+ ion is the key intermediate in the syntheses of rotaxanes 1-12 and confirms the formation of the pseudorotaxane structure based on the recognition of MC1 and the guest units through a templating Na+ ion in solution. The relative low yield (10%) in the synthesis of rotaxane 13 compared to the one of rotaxane 12, can be rationalized by the release of triflate anions during the reaction progress, which destabilized the corresponding pseudorotaxanes by weakening the metal ion chelating and/or hydrogen bonding interactions among the components.
All related spectral data of rotaxane 12 and 13 are listed below. The 1H NMR and 13C NMR spectra of rotaxane 12 are shown in FIGS. 10A and 10B, respectively.
Rotaxane 12: 1H NMR (400 MHz, CDCl3): δ=0.80-0.90 (m, 2H), 1.36 (s, 18H), 1.40 (18H), 2.25-2.31 (m, 2H), 3.26 (t, J=6 Hz, 2H), 3.50-3.70 (m, 16H), 4.26 (d, J=10.8 Hz, 4H), 4.34 (d, J=10.8 Hz, 4H), 6.55-6.60 (br, 1H), 7.08 (t, J=1.6 Hz, 1H), 7.14 (s, 8H), 7.43 (d, J=1.6 Hz, 2H), 7.54 (t, J=1.6 Hz, 1H), 7.63 (d, J=1.6 Hz, 2H), 7.97-8.00 (br, 1H); 13C NMR (100 MHz, CDCl3): δ=27.2, 31.6, 35.0, 35.0, 36.9, 62.2, 68.8, 70.4, 73.3, 112.5, 116.0, 121.3, 124.5, 128.9, 135.7, 136.9, 138.6, 150.4, 151.0, 153.4, 168.0 (one signal is missing, possibly because of signal overlapping); HRMS (ESI): m/z [M+H]+: C57H83N2O9 calcd. 939.6099. found 939.6126; [M+Na]+: C57H82N2O9Na calcd. 961.5918. found 961.5944.
Rotaxane 13: 1H NMR (400 MHz, CDCl3): 8=0.65-0.75 (m, 2H), 1.04-1.15 (m, 23H), 1.39 (18H), 3.09 (t, J=6.4 Hz, 2H), 3.50-3.70 (m, 16H), 4.24 (d, J=10.8 Hz, 4H), 4.34 (d, J=10.8 Hz, 4H), 7.02-7.10 (m, 9H), 7.55 (d, J=1.6 Hz, 2H), 7.90 (s, 1H); 13C NMR (100 MHz, CDCl3): 8=12.1, 18.3, 26.6, 31.8, 32.8, 35.1, 63.5, 68.8, 70.6, 73.2, 113.9, 115.7, 128.6, 136.9, 139.4, 150.4, 170.2; HRMS (ESI): m/z [M+Na]+: C51H81NO8SiNa calcd. 886.5629. found 886.5657.
Example 11
Amide 4 Containing One Glycine Residue







In this example, amide 4 containing one C-amidated glycine moiety and having an amide group conjugated to no aromatic rings was used as the guest molecule. NaTFPB or NaClO4 was used as the templating salt. MC1, MC5, or MC6 was used as the host molecule. SA1 or SA6 was used as the stoppering agent. For preparing the rotaxanes 14-17, a CH2Cl2 solution containing amide 4, the macrocyclic host and the templating salt was added the stoppering agent and stirred at ambient temperature for 16 hours.
From the result above, it can be seen that even though the amide moiety is not directly linking to any aromatic rings, threading of a single amide unit through the cavity of a macrocytic molecule in the presence of a templating Na+ ion is still feasible. Using SA6 as the stoppering reagent, rotaxane 16 and 17 can still be synthesized in reasonable yields. This result suggested that no additional functionality will need to be introduced into the main chain structure of the peptide (unlike the urea moiety found in rotaxane 14), thereby allowing this recognition system to be used for constructing interlocked or interwoven structures featuring pure peptide chains. The successful syntheses of rotaxanes 14-17 also suggested that counter anion for the Na+ ion template is not only limited to TFPB, other weakly ion-pairing anions, such as ClO4− can also be used. Moreover, the above results suggested that the recognition of the host molecules above required only one single amide functionality, thereby potentially allowing higher-order [n]rotaxanes to be prepared from relatively long peptides.
When LiTFPB and KTFPB were used in place of NaTFPB in the synthesis of rotaxane 15 under similar conditions, the yield of the [2]rotaxane dropped to 9% and 4%, respectively, suggesting that Li+ and K+ ions are also qualified templates in such a recognition system but just not as good as Na+ ions.
All related spectral data of rotaxane 14-17 are listed below. The 1H NMR and 13C NMR spectra of rotaxane 14 and 17 are shown in FIGS. 11 and 12, respectively.
The solid state structure of rotaxane 16 is shown in FIG. 13. Single crystals suitable for X-ray crystallography were grew through liquid diffusion of hexane into a CH2Cl2 solution of rotaxane 16. The solid state structure of rotaxane 16 reveals the expected geometry, in which the amide group of the threadlike component penetrated MC1 and had its NH proton hydrogen bonding to the oxygen atoms of the ethylene glycol chain of MC1.
Rotaxane 14: M.p. 152-153° C.; 1H NMR (400 MHz, CDCl3): δ=1.36 (s. 18H), 1.36 (s, 18H), 2.35 (d, J=3.6 Hz, 2H), 3.48-3.62 (m, 16H), 4.21 (d, J=5.6 Hz, 2H), 4.28 (d, J=10.8 Hz, 4H), 4.29 (d, J=10.8 Hz, 4H), 4.80-4.83 (t, J=3.6 Hz, 1H), 6.60-6.65 (br, 1H), 7.00 (t, J=1.6 Hz, 1H), 7.10 (s, 8H), 7.19 (d, J=2 Hz, 2H), 7.35 (t, J=1.6 Hz, 1H), 7.40 (d, J=2 Hz, 2H), 7.55 (s, 1H); 13C NMR (100 MHz, CDCl3): 6=31.6, 31.7, 34.9, 35.0, 41.7, 44.2, 68.8, 70.4, 73.3, 112.4, 114.8, 121.4, 123.5, 128.5, 136.6, 137.6, 140.3, 150.6, 150.7, 153.9, 168.1; HRMS (ESI): m/z [M+H]+: C56H82N3O8 calcd. 924.6102. found 924.6133; [M+Na]+: C56H81N3O8Na calcd. 946.5921. found 946.5948.
Rotaxane 15: 1H NMR (400 MHz, CDCl3): δ=1.26 (s, 18H), 1.28 (s, 18H), 2.45 (d, J=2.4 Hz, 2H), 3.49-3.68 (m, 8H), 4.19 (d, J=4.8 Hz, 2H), 4.25 (d, J=10.8 Hz, 2H), 4.29 (d, J=10.8 Hz, 2H), 4.36 (s, 4H), 4.44 (d, J=11.6 Hz, 2H), 4.50 (d, J=11.6 Hz, 2H), 5.30 (s, 1H), 6.96 (s, 1H), 7.12 (s, 10H), 7.22-7.32 (m, 4H), 7.50 (s, 1H), 7.67 (t, J=8 Hz, 1H), 8.09 (s, 1H); 13C NMR (100 MHz, CDCl3): 6=31.4, 31.5, 34.7, 34.8, 41.6, 44.1, 69.1, 70.6, 71.1, 72.6, 73.3, 112.3, 114.7, 120.4, 121.4, 123.6, 128.5, 128.6, 136.3, 136.9, 137.4, 137.5, 140.5, 150.7, 150.8, 154.3, 157.4, 167.8; HRMS (ESI): m/z [M+H]+: C59H81N4O7 cal. for 957.6105. found 957.6077; [M+Na]+: C59H80N4O7Na cal. for 979.5925. found 979.5911.
Rotaxane 16: M.p. 150-151° C.; 1H NMR (400 MHz, CDCl3): δ=1.34 (s, 18H), 1.39 (s, 18H), 3.04 (d, J=5.2 Hz, 2H), 3.38-3.50 (m, 16H), 3.79 (d, J=5.2 Hz, 2H), 4.27 (d, J=10.8 Hz, 4H), 4.31 (d, J=10.8 Hz, 4H), 6.68-6.71 (br, 1H), 6.90-6.96 (br, 1H), 7.08 (d, J=1.6 Hz, 2H), 7.11 (s, 8H), 7.30 (t, J=1.6 Hz, 1H), 7.51 (t, J=1.6 Hz, 1H), 7.57 (d, J=1.6 Hz, 2H); 13C NMR (100 MHz, CDCl3): 6=31.5, 31.6, 34.8, 35.0, 42.8, 43.7, 68.8, 70.3, 73.2, 121.0, 121.8, 123.4, 124.6, 128.7, 134.8, 136.8, 137.7, 150.1, 150.2, 167.5 (one signal is missing, possibly because of signal overlapping); HRMS (ESI): m/z [M+H]+: C56H81N2O8 calcd. 909.5993. found 909.6069; [M+Na]+: C56H80N2O8Na calcd. 931.5812. found 931.5808.
Rotaxane 17: 1H NMR (400 MHz, CD3COCD3): δ=1.24 (s, 18H), 1.33 (s, 18H), 3.35-3.42 (m, 2H), 3.43-3.73 (m, 16H), 4.07 (d, J=12.4 Hz, 2H), 4.13 (d, J=5.6 Hz, 2H), 4.27-4.35 (m, 4H), 4.40 (d, J=11.2 Hz, 2H), 6.93 (d, J=7.6 Hz, 2H), 7.00 (s, 4H), 7.08 (d, J=1.6 Hz, 2H), 7.30-7.36 (m, 2H), 7.47 (s, 3H), 7.58 (t, J=5.6 Hz, 1H), 8.40 (d, J=5.8 Hz, 1H); 13C NMR (100 MHz, CD3COCD3): δ=31.8, 31.9, 35.2, 35.4, 43.9, 44.4, 69.3, 70.5, 71.0, 71.0, 73.5, 73.7, 120.8, 121.6, 123.1, 124.1, 124.9, 129.2, 134.8, 137.2, 138.1, 140.2, 150.0, 151.0, 158.1, 166.9, 170.1; HRMS (ESI): m/z [M+H]+: C55H80N3O8 calcd. 910.5945. found 910.5978; [M+Na]+ C55H79NaN3O8 calcd. 932.5764. found 932.5791.
Example 12
Amide 5 Containing Three Glycine Residues




In this example, amide 5 containing three glycine residues was used as the guest molecule. The template ion, the host molecule, and the stoppering agent were NaClO4, MC1, and SA6, respectively. For preparing the [2]rotaxane 18 and the [3]rotaxane 19, a CH2Cl2 solution containing amide 5, NaClO4, and MC1 was added with SA6, and stirred at ambient temperature for 16 hours.
Amide 6 has three amide units presented in its gly-gly-gly backbone for the binding of MC1. The isolation of [3]rotaxane 19 suggested that the three amide units in amide 5 can, at least, accommodate two MC1 hosts in the same time. This result demonstrates the potential application of this recognition system in the assembly of interlocked structures from peptides and other amide bond containing bio- or artificial (macro)molecules.
The 1H NMR and 13C NMR spectra of rotaxane 18 and 19 are shown in FIGS. 14 and 15, respectively. All related spectral data are listed below.
[2]Rotaxane 18: 1H NMR (400 MHz, CD3COCD3): δ=1.34 (s, 18H), 1.38 (s, 18H), 3.15 (d, J=5.6 Hz, 2H), 3.29 (d, J=4.8 Hz, 2H), 3.49-3.61 (m, 16H), 3.94 (d, J=5.6 Hz, 2H), 4.30 (d, J=5.6 Hz, 2H), 4.34 (s, 8H), 6.60 (t, J=5.2 Hz, 1H), 6.91 (t, J=4.8 Hz, 1H), 7.04 (t, J=5.2 Hz, 1H), 7.10 (s, 8H), 7.24 (d, J=2 Hz, 2H), 7.40 (t, J=2 Hz, 1H), 7.67 (t, J=2 Hz, 1H), 7.86 (d, J=2 Hz, 2H), 7.99 (t, J=5.6 Hz, 1H); 13C NMR (100 MHz, CD3COCD3): δ=31.8, 31.9, 35.4, 35.6, 42.8, 43.0, 43.8, 44.1, 69.7, 71.0, 73.6, 121.8, 122.4, 123.2, 125.9, 129.3, 135.0, 137.9, 139.2, 151.2, 151.3, 168.0, 168.3, 168.7, 169.3; HRMS (ESI): m/z [M+H]+: C60H87N4O10 calcd. 1023.6422. found 1023.6401; [M+Na]+: C60H86N4O10Na calcd. 1045.6242. found 1045.6211.
[3]Rotaxane 19: 1H NMR (400 MHz, CD3COCD3): δ=1.38 (s, 18H), 1.44 (s, 18H), 2.75 (d, J=4.8 Hz, 2H), 3.02 (d, J=5.2 Hz, 2H), 3.36-3.71 (m, 34H), 3.89 (d, J=5.6 Hz, 2H), 4.35-4.40 (m, 8H), 4.49-4.56 (m, 8H), 6.38 (t, J=4.8 Hz, 1H), 6.60 (t, J=5.2 Hz, 1H), 6.94 (t, J=5.6 Hz, 1H), 7.12 (d, J=2 Hz, 2H), 7.24 (s, 9H), 7.30 (s, 8H), 7.40 (t, J=2 Hz, 1H), 7.66 (s, 3H); 13C NMR (100 MHz, CD3COCD3): δ=31.9, 32.0, 35.5, 35.7, 42.7, 43.0, 43.2, 44.3, 69.6, 69.7, 71.1, 71.2, 73.5, 73.6, 121.6, 122.8, 123.8, 125.4, 129.4, 129.5, 136.2, 138.1, 138.1, 139.3, 150.9, 150.9, 167.4, 168.2, 168.7, 168.9; HRMS (ESI): m/z [M+H]+: C84H119N4O16 calcd. 1439.8621. found 1439.8571; [M+Na]*: C84H118N4O16Na calcd. 1461.8441. found 1461.8384.
Example 13
Amide 6 Containing One Repeating Unit of Nylon-6.6




In this example, amide 6 containing one repeating unit of nylon-6,6 was used as the guest molecule. The templating salt, the host molecule, and the stoppering agent were NaClO4, MC1, and SA6, respectively. For preparing the rotaxane 20, a CH2Cl2 solution containing amide 6, NaClO4, and MC1 was added with SA6, and then stirred at ambient temperature for 16 hours.
Since amide 6 containing the repeating unit of nylon-6,6, the successful synthesis of rotaxane 20 supported that such a Na+ ion-assisted host-guest complexation system can be used directly to form interwoven or interlocked structures from common peptides and other amide bond containing bio- and artificial (macro)molecules without alternating their key molecular structures.
The 1H NMR and 13C NMR spectra of rotaxane 20 are shown in FIGS. 16A and 16B, respectively. All related spectral data are listed below.
rotaxane 20: M.p. 161-163° C.; 1H NMR (400 MHz, CD3COCD3): δ=0.82-1.02 (m, 8H), 1.14-1.25 (m, 4H), 1.32 (s, 18H), 1.37 (s, 18H), 1.91 (t, J=6.8 Hz, 2H), 1.97 (t, J=7.2 Hz, 2H), 2.67 (q, J=6.4 Hz, 2H), 2.99 (q, J=6.8 Hz, 2H), 3.48-3.54 (m, 16H), 4.31 (d, J=5.6 Hz, 2H), 4.34 (s, 8H), 6.40-6.45 (br, 1H), 7.16-7.23 (m, 11H), 7.36 (t, J=1.6 Hz, 1H), 7.42-7.47 (br, 1H), 7.62 (t, J=1.6 Hz, 1H), 7.79 (d, J=1.6 Hz, 2H); 13C NMR (100 MHz, CD3COCD3): 6=25.8, 26.0, 27.1, 27.3, 31.8, 31.9, 35.3, 35.6, 36.6, 36.6, 39.5, 40.3, 44.0, 69.3, 71.0, 73.5, 121.4, 122.1, 122.7, 125.3, 129.4, 136.0, 138.1, 139.7, 151.0, 151.1, 167.5, 172.1, 172.6 (two signals are missing, possibly because of signal overlapping); HRMS (ESI): m/z [M+Na]+: C66H99N3O9Na calcd. 1100.7279. found 1100.7243.
Embodiment 4
Guest Molecules Containing at Least One Oligo(Ethylene Glycol)Group
Example 14
Ether 1 Containing a Di-ethylene Glycol Moiety




In this example, ether 1 containing a diethylene glycol segment was used is as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA7 was used as the stoppering agent. For preparing the rotaxane 21, a solid mixture obtained from concentrating a CH2Cl2 solution mixture of ether 1, NaTFPB and MC1 was mixed with solid SA7 and ball-milled at 20 Hz for 90 minutes.
Since ether 1 and MC1 contain only aromatic and diethylene glycol units, between which hydrogen bond cannot be generated, the pseudorotaxane precursor for the synthesis of rotaxane 21 must be assembled by using Na+ ion to template the threading the diethylene glycol segment of ether 1 into MC1.
The 1H NMR and 13C NMR spectra of rotaxane 21 are shown in FIGS. 17A and 17B, respectively. All related spectral data are listed below.
rotaxane 21: 1H NMR (400 MHz, CDCl3): δ=1.33 (s, 18H), 2.63-2.74 (m, 2H), 2.75-2.83 (m, 2H), 2.91-3.01 (m, 1H), 3.01-3.09 (m, 1H), 3.09-3.31 (m, 6H), 3.33-3.55 (m, 21H), 3.63-3.74 (m, 1H), 3.86-3.97 (m, 1H), 4.03-4.14 (m, 1H), 4.29-4.39 (m, 8H), 4.43 (s, 2H), 7.09 (s, 8H), 7.16-7.22 (m, 6H), 7.30-7.41 (m, 4H), 7.49-7.55 (m, 1H); 13C NMR (100 MHz, CDCl3): δ=31.6, 33.2, 34.9, 36.7, 47.5, 68.0, 68.5, 68.9, 69.1, 69.4, 69.5, 70.3, 73.1, 73.9, 121.5, 122.0, 125.9, 126.5, 126.6, 127.4, 127.8, 128.7, 129.5, 129.9, 130.0, 130.7, 131.6, 133.9, 137.2, 137.3, 137.5, 141.5, 146.0, 150.4; HRMS (ESI): m/z [M+H]+ C61H80N3O9 calcd. 998.5894. found 998.5837; [M+Na]+: C61H8679N3O9Na calcd. 1020.5714. found 1020.5688.
Example 15
Ether 2 Containing a Tri-ethylene Glycol Moiety




In this example, ether 2 containing a triethylene glycol segment was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA7 was used as the stoppering agent. For preparing the rotaxane 22, a solid mixture obtained from concentrating a CH2Cl2 solution mixture of ether 2, NaTFPB and MC1 was mixed with solid SA7 and ball-milled at 20 Hz for 90 minutes.
The higher yield in the synthesis of rotaxane 22 compared to the one of rotaxane 21 under similar condition is likely to due to the triethylene glycol motif of ether 2 contains more oxygen atoms than the diethylene glycol one of ether 1, to which increases its affinity to the templating Na+ ion and stabilizes the corresponding pseudorotaxane more.
All related spectral data of rotaxane 22 are listed below.
rotaxane 22: 1H NMR (400 MHz, CDCl3): δ=1.31 (s, 18H), 2.73-2.82 (m, 2H), 2.82-2.89 (m, 2H), 2.89-2.99 (m, 2H), 3.07-3.21 (m, 6H), 3.24-3.30 (m, 2H), 3.36-3.51 (m, 20H), 3.91-4.03 (m, 1H), 4.08-4.19 (m, 1H), 4.27-4.40 (m, 8H), 4.45 (s, 2H), 4.457.11 (s, 8H), 7.14-7.23 (m, 6H), 7.28-7.41 (m, 4H), 7.49-7.53 (m, 1H); 13C NMR (100 MHz, CDCl3): δ=31.6, 33.2, 34.9, 36.7, 47.5, 68.2, 68.5, 69.2, 69.2, 69.3, 69.7, 70.1, 70.3, 73.1, 73.9, 121.5, 122.0, 125.9, 126.5, 126.5, 127.8, 128.7, 129.4, 129.9, 129.9, 130.7, 131.6, 133.9, 137.2, 137.2, 137.3, 137.5, 141.5, 146.0, 150.5 (one signals is missing, possibly because of signal overlapping); HRMS (ESI): m/z [M+H]+ C63H84N3O10 calcd. 1042.6156. found 1042.6188.
Example 16
Ether 3 Containing a Tetra-ethylene Glycol Moiety




In this example, ether 3 containing a tetra-ethylene glycol segment was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. SA3 was used as the stoppering agent. For preparing the rotaxane 23, a sticky liquid obtained from concentrating a CH2Cl2 solution mixture of ether 3, NaTFPB and MC1 was mixed with SA3 and the neat mixture was stirred until solidified.
Compared to ether 2, ether 3 contains an even longer ethylene glycol chain for binding the Na+ ion template. The relatively low yield in the synthesis of rotaxane 23 compared to the one of rotaxane 22, however, may due to different stoppering method applied or the increasing tendency for ether 3 to bind Na+ ion template alone.
The 1H NMR and 13C NMR spectra of rotaxane 23 are shown in FIGS. 18A and 18B, respectively. All related spectral data are listed below.
rotaxane 23: 1H NMR (400 MHz, CDCl3, 298 K): δ=1.30 (s, 18H), 1.32 (s, 18H), 3.39-3.69 (m, 32H), 3.80 (d, J=5.3 Hz, 2H), 4.21-4.34 (m, 10H), 4.50 (s, 2H), 4.52 (s, 2H), 5.81 (t, J=4.7 Hz, 1H), 6.95 (s, 8H), 7.03-7.08 (m, 4H), 7.14 . . . 7.20 (m, 4H), 7.30 (d, J=10.2 Hz, 2H); 13C NMR (100 MHz, CDCl3, 298 K): δ=31.6, 31.7, 34.9, 34.9, 45.6, 65.1, 68.6, 69.2, 69.4, 70.3, 70.6, 73.1, 73.9, (five aliphatic carbon signals are missing possibly because of signal overlapping) 120.9, 121.5, 121.9, 123.0, 126.8, 127.5, 128.4, 136.3, 136.8, 137.1, 137.5, 150.3, 150.5, 155.6; (one aromatic carbon signal is missing possibly because of signal overlap); HRMS (ESI): m/z [M+H]+ C71H104NO13 calcd. 1178.7507. found 1178.7553.
Embodiment 5
Using Diamine and dialdehyde to Synthesize Host Molecules, Guest Molecules, or Both
Example 17
DAM1 Containing a Di-ethylene Glycol Moiety




In this example, DAM1 containing a diethylene glycol segment was used as the guest molecule. NaTFPB was used as the templating salt. MC7, which in situ generated from the imine formation reaction of DAM1 and DAD1 was used as the host molecule. For preparing the catenane 1, DAM1, NaTFPB and DAD1 were mixed in CH2Cl2 and the solution mixture was stirred at 50° C. for 16 hours.
Spectra 19A-19C in FIG. 19 are the partial 1H NMR spectra (400 MHz, CDCl3, 298 K) displaying the formation of catenane 1 from an mixture of DAM1, DAD1, and NaTFPB (20 mM: 20 mM: 10 mM) over time. A new set of signals corresponding to catenane 1 was observed in the original mixture (spectrum 19B), which then became the predominated species in solution after 3 hours (spectrum 19C). Comparing spectra 19A and 19C, the disappearance of the aldehyde signal at δ 10.10 and the appearance of the imine signal at δ8.42, suggested that the DAD1 and DAM1 have been linked by imine bonds. The significant upfield shifted of the diethylene glycol signal at δ 2.59 and 2.98 in the 1H NMR spectrum, indicated its location in the shielding zone of the xylene groups and supported the formation of the catenane 1.
According to similar NMR experiments, signals belong to catenane 1 cannot be observed in the spectra when zero or one equivalent of NaTFPB was applied under similar reaction condition. This result not only suggested that Na+ ion is a crucial template for the formation of catenane 1 but also supported the need for two diethylene glycol chains in such a complexation.
Since imine bonds are easily hydrolyzed, catenane 1 was not subject to further purification. PhSeH was used to reduce the imine bonds in catenane 1 and catenane 2, which has two MC8 interlocked, was isolated in 17% yield after column chromatography. According to the 1H NMR spectrum, catenane 1 was the predominate species in solution; the relative low yield in the synthesis of catenane 2, however, suggested that the PhSeH reduction reaction is not efficient enough to prevent the dissociation of the components.
MC7 contains a diethylene glycol, a 1,3-bis(iminomethyl)benzene and two xylene groups. The formation of catenane 1 in solution suggested that DAM1 is capable to thread through MC7 with the assistance from Na+ ion template. This result confirmed that pseudorotaxane formed from threading to one oligo(ethylene glycol) containing guest into another oligo(ethylene glycol) containing macrocycle can not only be used to synthesize rotaxanes but also to construct catenanes. Therefore, pseudorotaxanes formed from guests containing urea, carbamate and amide groups and similar macrocyclic imine hosts should also be reasonable precursors for preparing the corresponding catenanes and rotaxanes.
All related spectral data of catenane 2 are listed below. The 1H NMR and 13C NMR spectra of catenane 2 are shown in FIGS. 20A and 20B, respectively.
Catenane 2: 1H NMR (400 MHz, CDCl3): 6=3.20-3.35 (br, 16H), 3.37-3.43 (br, 8H), 3.45-3.51 (br, 8H), 4.32 (s, 8H), 6.90-7.03 (br, 18H), 7.06-7.11 (br, 4H), 7.24 (t, J=8 Hz, 4H); 13C NMR (100 MHz, CD3OD): δ=13C NMR (100 MHz, CD3OD): δ5=53.9, 54.6, 70.1, 71.2, 74.1, 128.2, 129.1, 129.7, 130.0, 130.1, 138.1, 140.2, 140.8; HR-MS (ESI): m/z calcd for [M+H]C56H69N4O6+: 893.5212. found 893.5158.
Example 18
MC1 Containing Two Di-ethylene Glycol Moiety
In this example, DAM2 containing a 2,6-bis(hydroxymethyl)pyridine segment was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. For preparing the catenane 3, DAM2, NaTFPB and DAD1 were mixed in CH2Cl2 and the solution mixture was stirred at 50° C. for 48 hours.
Since imine bonds are easily hydrolyzed, catenane 3, which has MC1 and MC9 interlocked, was not subject to further purification. PhSeH was used to reduce the imine bonds in catenane 3 and catenane 4, which has MC1 and MC10 interlocked, was isolated in 7% yield after column chromatography.




MC1 contains two diethylene glycol and two xylene groups. MC9 contains a 2,6-bis(hydroxymethyl)pyridine, a 1,3-bis(iminomethyl)benzene and two xylene groups. The formation of catenane 3 in solution suggested that the 2,6-bis(hydroxymethyl)pyridine motif in DAM2 is also capable to thread through MC1 with the assistance from Na+ ion template. In the other hand, this result also suggested that the 2,6-bis(hydroxymethyl)pyridine motif in MC9 is also capable to accommodate the threading of an oligo(ethylene) glycol-containing guest under similar condition.
All related spectral data of catenane 4 are listed below. The 1H NMR and 13C NMR spectra of catenane 4 are shown in FIGS. 21A and 21B, respectively.
Catenane 4: 1H NMR (400 MHz, CD3CN): δ=3.05 (t, J=6 Hz, 8H), 3.16-3.21 (m, 12H), 3.30 (s, 4H), 4.14 (s, 8H), 4.30 (s, 4H), 4.59 (s, 4H), 6.93-6.98 (m, 10H), 7.02 (s, 1H), 7.10 (d, J=8 Hz, 4H), 7.15 (t, J=8 Hz, 1H), 7.19 (d, J=8 Hz, 4H), 7.33 (d, J=8 Hz, 2H), 7.72 (t, J=8 Hz, 1H); 13C NMR (100 MHz, CD3CN): δ=54.3, 54.7, 69.0, 70.5, 71.5, 72.8, 73.3, 120.3, 26.8, 127.4, 128.7, 128.8, 129.4, 129.7, 136.6, 137.8, 138.1, 41.2, 141.5, 158.4; HR-MS (ESI): m/z calcd for [M+H]+ C55H66N3O8+: 896.4850. found 896.4850.
Example 19
DAM2 Containing a 2,6-Bis(hydroxymethyl)pyridine Moiety and DAD1




In this example, DAM2 containing a 2,6-bis(hydroxymethyl)pyridine segment was used as the guest molecule. NaTFPB was used as the templating salt. MC9, which in situ generated from the imine formation reaction of DAM2 and DAD1 was used as the host molecule. For preparing the catenane 5, DAM2, NaTFPB and DAD1 were mixed in CH2Cl2 and the solution mixture was stirred at 50° C. for 48 hours.
Since imine bonds are easily hydrolyzed, catenane 5 was not subject to further purification. PhSeH was used to reduce the imine bonds in catenane 5 and catenane 6, which has two MC10 interlocked, was isolated in 34% yield after column chromatography.
MC9 contains a 2,6-bis(hydroxymethyl)pyridine, a 1,3-bis(iminomethyl)benzene and two xylene groups. The formation of catenane 5 in solution suggested that DAM2 is capable to thread through MC9 with the assistance from Na+ ion template. This result confirmed that pseudorotaxane formed by threading one 2,6-bis(hydroxymethyl)pyridine containing guest into another 2,6-bis(hydroxymethyl)pyridine containing macrocycle can not only be used to synthesize rotaxanes but also to construct catenanes. Therefore, pseudorotaxane formed from guests containing urea, carbamate, amide or oligo(ethylene glycol) group and similar macrocyclic imine hosts should also be reasonable precursors for preparing the corresponding catenanes and rotaxanes.
All related spectral data of catenane 6 are listed below. The 1H NMR and 13C NMR spectra of catenane 6 are shown in FIGS. 22A and 22B, respectively.
Catenane 6: 1H NMR (400 MHz, CD3CN): 6=3.03 (s, 8H), 3.08 (s, 8H), 4.35 (s, 8H), 4.54 (s, 8H), 6.83-6.90 (m, 16H), 7.06 (d, J=8 Hz, 8H), 7.14 (t, J 15=8 Hz, 2H), 7.35 (d, J=8 Hz, 4H), 7.75 (t, J=8 Hz, 2H); 13C NMR (100 MHz, CD3CN): δ=54.6, 71.7, 73.0, 120.3, 127.6, 128.4, 129.5, 129.7, 129.8, 137.2, 138.2, 141.3, 141.4, 158.9 (one signal is missing, possibly because of signal overlapping); HR-MS (ESI): m/z calcd for [M+H]+ C62H67N6O4+: 959.5218. found 959.5269.
Example 20
DAM2 Containing 2,6-Bis(hydroxymethyl)pyridine Moiety and DAD2




In this example, DAM2 containing a 2,6-bis(hydroxymethyl)pyridine segment was used as the guest molecule. NaTFPB was used as the templating salt. MC1 was used as the host molecule. For preparing the catenane 7, DAM2, NaTFPB and DAD2 were mixed in CH2Cl2 and the solution mixture was stirred at 50° C. for 48 hours.
Since imine bonds are easily hydrolyzed, catenane 7 was not subject to further purification. PhSeH was used to reduce the imine bonds in catenane 7 and catenane 8, which has MC1 and MC12 interlocked, was isolated in 4% yield after column chromatography.
MC1 contains two diethylene glycol and two xylene groups. MC11 contains a 2,6-bis(hydroxymethyl)pyridine, a 2,6-bis(iminomethyl)pyridine and two xylene groups. The formation of catenane 7 in solution indicated that DAD2 is also capable to cyclize the pseudorotaxane formed from DAM2, MC1 and Na+ ion and suggested the existence of structural flexibilities in the dialdehyde used in such a self-assembly approach.
All related spectral data of catenane 8 are listed below. The 1H NMR and 13C NMR spectra of catenane 8 are shown in FIGS. 23A and 23B, respectively.
Catenane 8: 1H NMR (400 MHz, CD3CN): δ=3.10-3.15 (br, 8H), 3.18-3.23 (br, 8H), 3.30 (br, 4H), 3.34 (s, 4H), 4.11 (s, 8H), 4.32 (s, 4H), 4.57 (s, 4H), 6.97 (s, 8H), 7.03-7.10 (m, 6H), 7.18 (d, J=8 Hz, 4H), 7.33 (d, J=8 Hz, 2H), 7.63 (t, J=8 Hz, 1H), 7.73 ppm (t, J=8 Hz, 1H); 13C NMR (100 MHz, CD3CN): δ=54.5, 55.5, 69.4, 70.7, 71.8, 73.0, 73.4, 120.6, 121.3, 129.4, 129.6, 130.1, 137.3, 138.1, 138.6, 158.9 ppm (three signals are missing, possibly because of signals overlapping); HR-MS (ESI): m/z calcd for [M+H]+ C54H65N4O8+: 897.4797. found 897.4785.
Example 21
Urea 6 Containing a Urea Moiety




In this example, urea 6 was used as the dumbbell-shaped guest. DAM2 and DAD2 were used to generate MC11 in situ. NaTFPB was used as the templating salt. For preparing rotaxane 24, urea 6, DAM2, NaTFPB and DAD2 were mixed in CH2Cl2 and the solution mixture was stirred at 50° C. for 16 hours.
Since imine bonds are easily hydrolyzed, rotaxane 24 was not subject to further purification. PhSeH was used to reduce the imine bonds in rotaxane 24 and rotaxane 25, which has MC12 interlocked inside urea 6, was isolated in 3% yield after column chromatography.
MC11 contains a 2,6-bis(hydroxymethyl)pyridine, a 2,6-bis(iminomethyl)pyridine and two xylene groups. The formation of rotaxane 24 in solution indicated that Na+ ion is capable to template the formation and encircling of MC11 on the urea functionality of urea 6. Thus, the same imine-formation “clipping” approach should also allow the formation of rotaxanes or catenanes from similar macrocyclic imine host and guests containing urea, carbamate, amide, oligo(ethylene glycol) and 2,6-bis(hydroxymethyl)pyridine groups.
All related spectral data of rotaxane 25 are listed below. The 1H NMR and 13C NMR spectra of rotaxane 25 are shown in FIGS. 24A and 24B, respectively.
Rotaxane 25: 1H NMR (400 MHz, CDCl3): δ=1.23 (s, 36H), 3.68 (s, 4H), 3.91 (s, 4H), 4.46 (s, 4H), 4.48 (s, 4H), 6.76-6.81 (m, 8H), 6.87 (d, J=8 Hz, 4H), 6.90 (t, J=2 Hz, 2H), 7.14 (d, J=8 Hz, 2H), 7.41 (d, J=8 Hz, 2H), 7.58 (t, J=8 Hz, 1H), 7.80 (t, J=8 Hz, 1H); 13C NMR (400 MHz, CDCl3): 6=31.5, 34.7, 54.4, 56.4, 70.8, 73.4, 112.6, 114.7, 120.8, 121.2, 127.5, 128.6, 133.6, 136.3, 138.0, 139.5, 140.7, 150.3, 150.7, 157.9, 159.4; HR-MS (ESI): m/z calcd for [M+H]+ C59H77N6O3+: 917.6057. found 917.6057.
Accordingly, a new molecular recognition system has been discovered. In this new recognition system, a single recognition moiety, such as a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine, of a threaded guest molecule can be recognized by a host molecule having a macrocyclic structure containing at least a binding unit (an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine group) and an aromatic linking spacer via a templating metal ion. This recognition system can also be applied on a guest molecule containing glycine residues, a repeating unit of Kelvar or a repeating unit of nylon-6,6. The extremely high structural flexibility of the guests for this recognition system will facilitate the introduction of interlocked or interwoven structures into (bio)materials found commonly in our daily lives to endow them with new functions or properties.
All the features disclosed in this specification (including any accompanying claims, abstract, and drawings) may be replaced by alternative features serving the same, equivalent or similar purpose, unless expressly stated otherwise. Thus, each feature disclosed is one example only of a generic series of equivalent or similar features.

## Claims

1. A pseudorotaxane complex comprising:
a host molecule having a macrocycle structure comprising at least a binding unit and an aromatic linking spacer, wherein the binding unit is 2,6-bis(hydroxymethyl)pyridine;
a guest molecule having at least a recognition moiety, wherein the recognition moiety is a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group or a 2,6-bis(hydroxymethyl)pyridine group; and
a metal ion, wherein the metal ion coordinates to the binding unit of the host molecule and the recognition moiety of the guest molecule.

2. The pseudorotaxane complex of claim 1, wherein the host molecule further comprises a binding assistant unit, and the binding assistant unit is an oligo(ethylene glycol) group, a 2,6-bis(hydroxymethyl)pyridine, a 2,2′-oxy-di(ethanethiol) group, a 1,3-bis(iminomethyl)benzene group, or a 2,6-bis(iminomethyl)pyridine group.

3. The pseudorotaxane complex of claim 1, wherein the aromatic linking spacer is p-xylenyl group or a 2,6-lutidinyl group.

4. The pseudorotaxane complex of claim 1, wherein the host molecule is











or

5. The pseudorotaxane complex of claim 1, wherein the guest molecule contains at least a glycine, a repeating unit of kevlar, or a repeating unit of nylon-6,6.

6. The pseudorotaxane complex of claim 1, wherein the metal ion is Li+, Na+ or K+.

7. A rotaxane or a catenane synthesized from the pseudorotaxane complex of claim 1, comprising:
a host molecule having a macrocycle structure comprising at least a binding unit and an aromatic linking spacer, wherein the binding unit is 2,6-bis(hydroxymethyl)pyridine; and
a guest molecule having at least a recognition moiety, wherein the recognition moiety is a urea group, a carbamate group, an amide group, an oligo(ethylene glycol) group, or a 2,6-bis(hydroxymethyl)pyridine group.

8. The rotaxane or catenane of claim 7, wherein the host molecule further comprises a binding assistant unit, and the binding assistant unit is an oligo(ethylene glycol) group, a 2,6-bis(hydroxymethyl)pyridine, a 2,2′-oxy-di(ethanethiol) group, a 1,3-bis(iminomethyl)benzene group, a 1,3-bis(aminomethyl)benzene group, a 2,6-bis(iminomethyl)pyridine group, or a 2,6-bis(aminomethyl)pyridine group.

9. The rotaxane or catenane of claim 7, wherein the aromatic linking spacer is a p-xylenyl group or a 2,6-lutidinyl group.

10. The rotaxane or catenane of claim 7, wherein the host molecule is

11. The rotaxane or catenane of claim 7, wherein the guest molecule contains at least a glycine, a repeating unit of kevlar, or a repeating unit of nylon-6,6.