# Synthesis and Molecular Structure of 4′,9′,4″,9″-Tetra-tert-butyl-1′,6′,1″,6″-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane

Authors: Tetsuji Moriguchi; Tatsuya Egami; Akihiko Tsuge
Journal: Journal of Crystallography
 (2014)

---

## Abstract

A large calixarene-like metacyclophane, 4′,9′,4″,9″-tetra-tert-butyl-1′,6′,1″,6″-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane, was synthesized by an intermolecular condensation reaction of its corresponding bischloromethyl-biphenyl and bishydroxymethyl-biphenyl precursors. After molecular characterization by 1H NMR spectroscopy and mass spectrometry, the compound generated single crystals by recrystallization from a dichloromethane/hexane mixture, facilitating an exact conformational determination via X-ray diffraction analysis. The crystal was found to belong to the monoclinic space group P
2
1
/
n with cell parameters a = 19.908(2) Å, b = 9.7193(11) Å, c = 23.350(3) Å, β = 109.594(1)°, and D
calc
=
1.150 g/cm3 at 90 K. The compound adopted quite strained 1,2-alternate-like conformations because its biphenyl parts displayed large dihedral angles and rigidity. The crystal did not incorporate any solvent molecule but its molecular cavity and crystal space were effectively filled by the substituents.


---

## Body

## 1. Introduction

Calixarenes are cyclic compounds consisting of aromatic rings and methylene bridge chains. In search for novel supramolecular hosts, numerous efforts have been deployed to decorate the upper or lower rim of calixarenes with various functional groups [1–3]. However, the nature of their cyclic skeleton clearly plays a central role in their remarkable performance as host molecules.Members of the metacyclophane family [4–8], calixarenes, are readily obtained by base-assisted condensation oftert-butylphenol and formaldehyde into methylene-based bridges exclusively. In addition, several calixarene analogues such as [1
n]metacyclophanes containing oxygen [9, 10] or nitrogen [11, 12] instead of methylene groups in their bridges have been prepared. Cyclic compounds such as calix[4]arenes and large metacyclophanes present various conformations derived from the orientations of the aromatic parts [13]. In addition, the crystal structures of several cyclophanes have been reported using an alternative synthetic pathway [14] and cesium ion template effect [15–19]. Although large metacyclophanes comprising ether bridges and biphenyl units have been synthesized and their host-guest properties were reported [20, 21], their structures in the crystals were not determined.In this study, we report the synthesis of “oxametabiphenilophanes,” a new class of metacyclophanes that incorporate oxygen atoms in bridges and two biphenyl parts thus giving rigidity to the molecules (Scheme1). A precursor mixture of bischloromethyl-biphenyl and bishidroxymethyl-biphenyl reacted under alkaline conditions to cyclize into the metacyclophane as a calix[4]arene analogue, which was readily separated from larger cyclization products and a resinous polymer byproduct using simple column chromatography. A crystal structure analysis was performed to determine the exact structure of the molecule.Scheme 1
4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 (right) and its precursors1,2 (left).


## 2. Materials and Methods

All reagents and solvents were obtained from commercial sources and used as received. The1H-NMR spectrum was recorded by a JEOL JNM A-500 spectrometer in CDCl3 with tetramethylsilane as an internal reference. The electron impact mass spectrum (EI-MS) of the compound was obtained in dichloromethane as the solvent using a JEOL JMS-SX102A spectrometer. The instrument was operated in the positive ion mode over anm/z range of 100–1200. The elemental analysis was performed using a YANAKO MT-5 CHN analyzer.


### 2.1. Synthesis of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3 (Scheme 1)

3,3′-Bischloromethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl1 (0.423 g, 1.00 mmol) and 3,3′-bishydroxymethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl2 (0.386 g, 1.00 mmol) were dissolved in a 1 : 1 benzene/ethanol mixture (150 mL) and the resulting solution was added dropwise to reflux ethanol (300 mL) containing the alkaline catalyst Cs2CO3 (1.96 g, 6.00 mmol) by using a high-dilution principle technique [12–15]. The reaction mixture was stirred at reflux temperature for 3 h before solvent removal by rotary evaporation. A solution of 1% aqueous HCl was added to the resulting residue, and the mixture was extracted with dichloromethane (100 mL × 3). The combined organic layers were washed with brine, dried over MgSO4, filtered, and evaporated to dryness under vacuum. The resulting residue was purified by silica gel chromatography (Wako C-300) using 1 : 1 dichloromethane/hexane as an eluent to give the desired compound 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 (260 mg, 36%) as a white solid.Single crystals were obtained by vapor diffusion of a dichloromethane/hexane solution of the metabiphenylophane at room temperature.M.p. 286°C–288°C.1H NMR (500 MHz, CDCl3) 1.33 (s, 36 H,tert-butyl H), 2.90 (s, 12 H, methoxy C–H), 4.28 (d, 4 H, ether bridge C–H, J
=
11.5 Hz), 4.76 (d, 4 H, ether bridge C–H, J
=
11.5 Hz), 7.27 (d, 4 H, biphenyl C–H, J
=
3.0 Hz), and 7.36 (d, 4 H, biphenyl C–H, J
=
3.0 Hz). EI-MS (50 eV):m/z 736 (M+). Elemental analysis: C 77.98% (78.22%, calcd.) and H 8.70% (8.75%, calcd.).


### 2.2. Single Crystal X-Ray Analysis and Structure Determination (Table1)

Table 1
Crystallographic data for 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3.
Empirical f
C48H64O6
Formula weight
736.99
Temperature
90 K
Wavelength
0.71073 Å
Crystal system
Monoclinic
Space group
P
2
1
/
n (no. 14)
Unit cell dimensions
a = 19.908(2) Å
b = 9.7193(11) Å
β = 109.594(1)°
c = 23.350(3) Å
Volume
4256.5(8) Å−3
Z
4
Density (calculated)
1.150 g/cm3
Absorption coefficient
0.074 mm−1
F(000)
1600
Crystal size
0.400× 0.350 × 0.250 mm
Theta range for data collection
1.17° to 28.65°
Index ranges
−26 ≤h ≤ 26, −13 ≤ k ≤ 13, −29 ≤l ≤ 30
Reflections collected
48529
Independent reflections
10321 [R(int) = 0.0234]
Reflections [I> 2sigma(I)]
9126
Completeness to theta = 28.65°
94.4%
Absorption correction
Empirical
Refinement method
Full-matrix least-squares onF
2
Data/restraints/parameters
10321/0/503
Goodness-of-fit onF
2
1.072
FinalR
1 indices [I > 2sigma(I)]
R
1 = 0.0408, w
R
2 = 0.1157
w
R
2 indices (all data)
R
1 = 0.0476, w
R
2 = 0.1279
Largest diff. peak and hole(RMS deviation of 0.11 e/Å3)
0.476 and −0.331 eÅ−3A colorless prismatic crystal of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 measuring approximately 0.40 mm × 0.35 mm × 0.25 mm was mounted on a glass fiber. The data was collected on a Bruker APEX II KY CCD diffractometer by using a graphite-monochromatized Mo/Kα radiation (λ
=
0.71073 Å) and a nominal crystal-to-area detector distance of ca. 83 mm.These measurements were performed at 90 K to a maximum 2θ value of 28.65° (0.74 Å resolution). The preliminary unit cell determination was conducted using the APEX2 software [22], and the integrated intensity determination and unit cell refinement were performed using the SAINT program [23]. Of the 48529 collected reflections, 10321 were unique (R
int
⁡
=
0.0234, R
σ
=
0.0180) and equivalent reflections were merged. The linear absorption coefficient, μ, for Mo/Kα radiation equaled 0.074 cm−1.An empirical absorption correction provided transmission factors ranging from 0.880 to 0.980 [24]. Data were corrected for Lorentz and polarization effects.The structure was solved by the SHELXS-97 direct method [25], and subsequent structure refinements were performed using SHELXL-97 [26]. All nonhydrogen atoms were refined using anisotropic displacement parameters. Hydrogen atoms at carbon atoms were added geometrically and refined using a riding model (constrained).The final cycle for the full-matrix least-squares refinement onF
2 was based on 10321 observed reflections and 503 variable parameters and converged with unweighted and weighted agreement factors of R
1
=
Σ
|
|
F
o
|
-
|
F
c
|
|
/
Σ
|
F
o
|
=
0.0306 and w
R
2
=
[
Σ
(
w
(
F
o
2
-
F
c
2
)
2
)
/
Σ
w
(
F
o
2
)
2
]
1
/
2
=
0.0843, respectively. The standard deviation amounted to 1.072 for the unit weight observations (Sstandard deviation of an observation of unit weight: [
Σ
w
(
F
o
2
-
F
c
2
)
2
/
(
N
o
-
N
v
)
]
1
/
2, where N
o = number of observations and N
v = number of variables) and sigma weights were used in the LS calculation (least Squares function minimized: (SHELXL-97): Σ
w
(
F
o
2
-
F
c
2
)
2, where w = Least Squares weights).The CIF data only showed one “Alert B” in the online check report of the Cambridge Crystal Data Centre (CCDC). This alert is related to the completeness of theta, which equaled 94.4% due to the crystal shape. Alerts A and C were not observed.Crystal details such as the atomic coordinates, displacement parameters, bond lengths, and bond angles appear in the Additional Information Section.


## 2.1. Synthesis of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3 (Scheme 1)

3,3′-Bischloromethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl1 (0.423 g, 1.00 mmol) and 3,3′-bishydroxymethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl2 (0.386 g, 1.00 mmol) were dissolved in a 1 : 1 benzene/ethanol mixture (150 mL) and the resulting solution was added dropwise to reflux ethanol (300 mL) containing the alkaline catalyst Cs2CO3 (1.96 g, 6.00 mmol) by using a high-dilution principle technique [12–15]. The reaction mixture was stirred at reflux temperature for 3 h before solvent removal by rotary evaporation. A solution of 1% aqueous HCl was added to the resulting residue, and the mixture was extracted with dichloromethane (100 mL × 3). The combined organic layers were washed with brine, dried over MgSO4, filtered, and evaporated to dryness under vacuum. The resulting residue was purified by silica gel chromatography (Wako C-300) using 1 : 1 dichloromethane/hexane as an eluent to give the desired compound 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 (260 mg, 36%) as a white solid.Single crystals were obtained by vapor diffusion of a dichloromethane/hexane solution of the metabiphenylophane at room temperature.M.p. 286°C–288°C.1H NMR (500 MHz, CDCl3) 1.33 (s, 36 H,tert-butyl H), 2.90 (s, 12 H, methoxy C–H), 4.28 (d, 4 H, ether bridge C–H, J
=
11.5 Hz), 4.76 (d, 4 H, ether bridge C–H, J
=
11.5 Hz), 7.27 (d, 4 H, biphenyl C–H, J
=
3.0 Hz), and 7.36 (d, 4 H, biphenyl C–H, J
=
3.0 Hz). EI-MS (50 eV):m/z 736 (M+). Elemental analysis: C 77.98% (78.22%, calcd.) and H 8.70% (8.75%, calcd.).


## 2.2. Single Crystal X-Ray Analysis and Structure Determination (Table1)

Table 1
Crystallographic data for 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3.
Empirical f
C48H64O6
Formula weight
736.99
Temperature
90 K
Wavelength
0.71073 Å
Crystal system
Monoclinic
Space group
P
2
1
/
n (no. 14)
Unit cell dimensions
a = 19.908(2) Å
b = 9.7193(11) Å
β = 109.594(1)°
c = 23.350(3) Å
Volume
4256.5(8) Å−3
Z
4
Density (calculated)
1.150 g/cm3
Absorption coefficient
0.074 mm−1
F(000)
1600
Crystal size
0.400× 0.350 × 0.250 mm
Theta range for data collection
1.17° to 28.65°
Index ranges
−26 ≤h ≤ 26, −13 ≤ k ≤ 13, −29 ≤l ≤ 30
Reflections collected
48529
Independent reflections
10321 [R(int) = 0.0234]
Reflections [I> 2sigma(I)]
9126
Completeness to theta = 28.65°
94.4%
Absorption correction
Empirical
Refinement method
Full-matrix least-squares onF
2
Data/restraints/parameters
10321/0/503
Goodness-of-fit onF
2
1.072
FinalR
1 indices [I > 2sigma(I)]
R
1 = 0.0408, w
R
2 = 0.1157
w
R
2 indices (all data)
R
1 = 0.0476, w
R
2 = 0.1279
Largest diff. peak and hole(RMS deviation of 0.11 e/Å3)
0.476 and −0.331 eÅ−3A colorless prismatic crystal of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 measuring approximately 0.40 mm × 0.35 mm × 0.25 mm was mounted on a glass fiber. The data was collected on a Bruker APEX II KY CCD diffractometer by using a graphite-monochromatized Mo/Kα radiation (λ
=
0.71073 Å) and a nominal crystal-to-area detector distance of ca. 83 mm.These measurements were performed at 90 K to a maximum 2θ value of 28.65° (0.74 Å resolution). The preliminary unit cell determination was conducted using the APEX2 software [22], and the integrated intensity determination and unit cell refinement were performed using the SAINT program [23]. Of the 48529 collected reflections, 10321 were unique (R
int
⁡
=
0.0234, R
σ
=
0.0180) and equivalent reflections were merged. The linear absorption coefficient, μ, for Mo/Kα radiation equaled 0.074 cm−1.An empirical absorption correction provided transmission factors ranging from 0.880 to 0.980 [24]. Data were corrected for Lorentz and polarization effects.The structure was solved by the SHELXS-97 direct method [25], and subsequent structure refinements were performed using SHELXL-97 [26]. All nonhydrogen atoms were refined using anisotropic displacement parameters. Hydrogen atoms at carbon atoms were added geometrically and refined using a riding model (constrained).The final cycle for the full-matrix least-squares refinement onF
2 was based on 10321 observed reflections and 503 variable parameters and converged with unweighted and weighted agreement factors of R
1
=
Σ
|
|
F
o
|
-
|
F
c
|
|
/
Σ
|
F
o
|
=
0.0306 and w
R
2
=
[
Σ
(
w
(
F
o
2
-
F
c
2
)
2
)
/
Σ
w
(
F
o
2
)
2
]
1
/
2
=
0.0843, respectively. The standard deviation amounted to 1.072 for the unit weight observations (Sstandard deviation of an observation of unit weight: [
Σ
w
(
F
o
2
-
F
c
2
)
2
/
(
N
o
-
N
v
)
]
1
/
2, where N
o = number of observations and N
v = number of variables) and sigma weights were used in the LS calculation (least Squares function minimized: (SHELXL-97): Σ
w
(
F
o
2
-
F
c
2
)
2, where w = Least Squares weights).The CIF data only showed one “Alert B” in the online check report of the Cambridge Crystal Data Centre (CCDC). This alert is related to the completeness of theta, which equaled 94.4% due to the crystal shape. Alerts A and C were not observed.Crystal details such as the atomic coordinates, displacement parameters, bond lengths, and bond angles appear in the Additional Information Section.


## 3. Results and Discussion

### 3.1. Synthesis of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3 (Scheme 1)

The dioxa[3.3]metacyclophane was synthesized from the precursors biphenyl derivatives 3,3′-bischloromethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl1 and 3,3′-bishydroxymethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl2 by using cesium ion template effect and high-dilution principle techniques. Cyclization conditions were quite general for the synthesis of macrocyclic compounds. The desired compound3 was readily isolated as a colorless solid by simple silica gel column chromatography in moderate yield (36%). The remaining residue contained larger macrocyclic compounds and resinous materials.


### 3.2. Characterization of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3

The EI mass spectrum of the compound3 at an ionization voltage of 50 eV exhibited only one intensive signal with characteristic isotopic patterns for [M]+. Its 1H NMR spectrum only showed two doublets corresponding to the aromatic protons of the biphenyl groups in addition to the signals of the fourtert-butyl and the four methoxy groups. Bridge ether protons also appeared as two doublets, making the exact structure of the molecule easy to determine via simple 1H NMR analysis. When measurement temperature is raised, the bridge ether protons also changed to two singlets.The molecular structure seems to be rigid in deuterated chloroform at 297 K, but the structure is readily moved by raising the measurement temperature.To the best of our knowledge, this is the first time that the exact structure and crystal packing of this cyclophane have been characterized using X-ray analysis.Compound3 crystallizes as its 1,2-alternate-type conformers in the centrosymmetric space groupP21/n (number 14; Z
=
4; Figure 1). Table 2 lists the selected bond lengths (Å) and bond angles (°) for the compound. Notably, the two ether bridges of the [3.3]metacyclophane ring adopt a pseudo-boat conformation [27–29].Table 2
Selected bond lengths (Å) and angles (°) in 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3.
O1–C9
1.4308(13)
O4–C31
1.4355(13)
O1–C10
1.4340(13)
O4–C32
1.4345(13)
O2–C7
1.3878(12)
O5–C34
1.3807(12)
O2–C17
1.4365(14)
O5–C35
1.4329(13)
O3–C29
1.3804(12)
O6–C38
1.3839(12)
O3–C30
1.4421(13)
O6–C39
1.4275(15)
C9–O1–C10
114.17(8)
C31–O4–C32
112.97(8)
O1–C9–C8
114.15(8)
O4–C31–C28
111.80(8)
O1–C10–C12
114.25(9)
O4–C32–C33
108.01(8)
C7–O2–C17
114.30(8)
C35–O5–C34
114.57(8)
C30–O3–C29
116.28(8)
C39–O6–C38
113.29(9)(a) Top and (b) side views of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3. Only one of the two 1,2-alternate isomers is shown. Displacement ellipsoids are drawn at the 50% probability level. All hydrogen atoms are omitted for clarity. The red and grey ellipsoids represent O and C atoms, respectively.
(a)
(b)In general, cyclic compounds, such as calixarenes and large-sized metacyclophanes, display many conformations in solution. For example, tetrahydroxycalix[4]arene exhibits four typical conformations, including cone, partial cone, 1,2-alternate, and 1,3-alternate (Figure1) [30]. In this study, the dioxa[3.3]metacyclophane presents a pseudo-1,2-alternate conformation. Moreover, its structure appears more rigid than calix[4]arenes because of its two rigid substituted biphenyl components. Furthermore, no solvent molecules are included in the crystals (Figure 2).Figure 2
Crystal packing of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3. Red and grey ellipsoids represent O and C atoms, respectively. All hydrogen atoms are omitted for clarity.Some intermolecular short contacts existed in the crystal, which are shown in Figure3 and are listed in Table 3. Hydrophobictert-butyl groups form two-dimensional hydrophobic domains along the (00
4) crystallographic planes of Miller indexes with ad002 repetition pattern. Interestingly, one of the methoxy groups (highlighted by a red square in Figure 4) is located in the cyclophane cavity and thetert-butyl groups effectively fill the crystal. These structural features limit the presence of other cyclophane conformers in the crystal.Table 3
Short contacts (Å) between neighboring 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane molecules in the crystal.
C9–C9
*
3.337(9)
H45A–H44A
*
*
2.384
C9–H9A
*
2.814
H44A–H45A
*
*
*
2.384
H9A–C9
*
2.814Figure 3
Short contacts between neighboring 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane molecules. The red and grey ellipsoids represent O and C atoms, respectively.Figure 4
Intramolecular cavity is filled with the methoxy substituent of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3. The red and grey ellipsoids represent O and C atoms, respectively. The red square highlights the methoxy group in the cyclophane cavity.The structure of dioxa[3.3]metabiphenilophane3 is quite strained in the crystal lattice, which can be attributed to the angular differences between the phenyl rings (C1–C2–C3–C4–C5–C6: ring A, C7–C8–C9–C10–C11–C12: ring B, C13–C14–C15–C16–C17–C18: ring C, and C19–C20–C21–C22–C23–C24: ring D, resp.). In the biphenyl ring planes, the dihedral angles amount to 81.62° between rings A and B and 53.73° between rings C and D rings. This discrepancy may be explained by the presence of the ether bridges linking the biphenyl parts and that of several bulky substituents at neighboring positions. Furthermore, it may stem from the cyclophane ring structure and molecular packing in the crystal. In general, phenyl rings can rotate variably in biphenyls and the angle between these phenyl rings depends on the steric hindrance from the substituents.


## 3.1. Synthesis of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3 (Scheme 1)

The dioxa[3.3]metacyclophane was synthesized from the precursors biphenyl derivatives 3,3′-bischloromethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl1 and 3,3′-bishydroxymethyl-2,2′-dimethoxy-5,5′-di-tert-butylbiphenyl2 by using cesium ion template effect and high-dilution principle techniques. Cyclization conditions were quite general for the synthesis of macrocyclic compounds. The desired compound3 was readily isolated as a colorless solid by simple silica gel column chromatography in moderate yield (36%). The remaining residue contained larger macrocyclic compounds and resinous materials.


## 3.2. Characterization of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane  3

The EI mass spectrum of the compound3 at an ionization voltage of 50 eV exhibited only one intensive signal with characteristic isotopic patterns for [M]+. Its 1H NMR spectrum only showed two doublets corresponding to the aromatic protons of the biphenyl groups in addition to the signals of the fourtert-butyl and the four methoxy groups. Bridge ether protons also appeared as two doublets, making the exact structure of the molecule easy to determine via simple 1H NMR analysis. When measurement temperature is raised, the bridge ether protons also changed to two singlets.The molecular structure seems to be rigid in deuterated chloroform at 297 K, but the structure is readily moved by raising the measurement temperature.To the best of our knowledge, this is the first time that the exact structure and crystal packing of this cyclophane have been characterized using X-ray analysis.Compound3 crystallizes as its 1,2-alternate-type conformers in the centrosymmetric space groupP21/n (number 14; Z
=
4; Figure 1). Table 2 lists the selected bond lengths (Å) and bond angles (°) for the compound. Notably, the two ether bridges of the [3.3]metacyclophane ring adopt a pseudo-boat conformation [27–29].Table 2
Selected bond lengths (Å) and angles (°) in 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3.
O1–C9
1.4308(13)
O4–C31
1.4355(13)
O1–C10
1.4340(13)
O4–C32
1.4345(13)
O2–C7
1.3878(12)
O5–C34
1.3807(12)
O2–C17
1.4365(14)
O5–C35
1.4329(13)
O3–C29
1.3804(12)
O6–C38
1.3839(12)
O3–C30
1.4421(13)
O6–C39
1.4275(15)
C9–O1–C10
114.17(8)
C31–O4–C32
112.97(8)
O1–C9–C8
114.15(8)
O4–C31–C28
111.80(8)
O1–C10–C12
114.25(9)
O4–C32–C33
108.01(8)
C7–O2–C17
114.30(8)
C35–O5–C34
114.57(8)
C30–O3–C29
116.28(8)
C39–O6–C38
113.29(9)(a) Top and (b) side views of 4′,9′,4′′,9′′-Tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3. Only one of the two 1,2-alternate isomers is shown. Displacement ellipsoids are drawn at the 50% probability level. All hydrogen atoms are omitted for clarity. The red and grey ellipsoids represent O and C atoms, respectively.
(a)
(b)In general, cyclic compounds, such as calixarenes and large-sized metacyclophanes, display many conformations in solution. For example, tetrahydroxycalix[4]arene exhibits four typical conformations, including cone, partial cone, 1,2-alternate, and 1,3-alternate (Figure1) [30]. In this study, the dioxa[3.3]metacyclophane presents a pseudo-1,2-alternate conformation. Moreover, its structure appears more rigid than calix[4]arenes because of its two rigid substituted biphenyl components. Furthermore, no solvent molecules are included in the crystals (Figure 2).Figure 2
Crystal packing of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane 3. Red and grey ellipsoids represent O and C atoms, respectively. All hydrogen atoms are omitted for clarity.Some intermolecular short contacts existed in the crystal, which are shown in Figure3 and are listed in Table 3. Hydrophobictert-butyl groups form two-dimensional hydrophobic domains along the (00
4) crystallographic planes of Miller indexes with ad002 repetition pattern. Interestingly, one of the methoxy groups (highlighted by a red square in Figure 4) is located in the cyclophane cavity and thetert-butyl groups effectively fill the crystal. These structural features limit the presence of other cyclophane conformers in the crystal.Table 3
Short contacts (Å) between neighboring 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane molecules in the crystal.
C9–C9
*
3.337(9)
H45A–H44A
*
*
2.384
C9–H9A
*
2.814
H44A–H45A
*
*
*
2.384
H9A–C9
*
2.814Figure 3
Short contacts between neighboring 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane molecules. The red and grey ellipsoids represent O and C atoms, respectively.Figure 4
Intramolecular cavity is filled with the methoxy substituent of 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3. The red and grey ellipsoids represent O and C atoms, respectively. The red square highlights the methoxy group in the cyclophane cavity.The structure of dioxa[3.3]metabiphenilophane3 is quite strained in the crystal lattice, which can be attributed to the angular differences between the phenyl rings (C1–C2–C3–C4–C5–C6: ring A, C7–C8–C9–C10–C11–C12: ring B, C13–C14–C15–C16–C17–C18: ring C, and C19–C20–C21–C22–C23–C24: ring D, resp.). In the biphenyl ring planes, the dihedral angles amount to 81.62° between rings A and B and 53.73° between rings C and D rings. This discrepancy may be explained by the presence of the ether bridges linking the biphenyl parts and that of several bulky substituents at neighboring positions. Furthermore, it may stem from the cyclophane ring structure and molecular packing in the crystal. In general, phenyl rings can rotate variably in biphenyls and the angle between these phenyl rings depends on the steric hindrance from the substituents.


## 4. Conclusions

The large metacyclophane 4′,9′,4′′,9′′-tetra-tert-butyl-1′,6′,1′′,6′′-tetramethoxy-2,5-dioxa[3.3]metabiphenylophane3 consisting of two biphenyl components linked through two ether bridges was synthesized and characterized by 1H NMR, EI-MS, and elemental analysis. Its exact structure in the solid state was also determined by single crystal X-ray diffraction. Only two enantiomers were present in the centrosymmetric unit cell and no solvent molecules were detected. The crystal space and the molecular cavity were filled effectively by thetert-butyl and methoxy substituents.



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*Source: 695701-2014-11-23.xml*