Dinesh
Marasinghe
,
Michael J.
Carrillo
,
Dakota Z.
Smallridge
,
Kaitlyn E.
Butts
,
Bijaya
Bagale
and
Michael J.
Tubergen
*
Department of Chemistry and Biochemistry, Kent State University, Kent, OH 44242, USA. E-mail: mtuberge@kent.edu
First published on 4th June 2025
The conformational structures of proline methyl ester (PrOMe) were modeled using CREST and further optimized using ωB97XD and MP2 methods with the 6-311++G(d,p) and aug-cc-pVDZ basis sets. Among the seven lowest energy conformers, two unique conformers, Cγ-exo/Cδ-endo and Cγ-endo, were found to be very close to the minimum energy. A rotational spectrum consisting of 51 rotational transitions was recorded for PrOMe using a cavity-based Fourier-transform microwave spectrometer in the range 9–20 GHz. The rotational transitions, split into resolved 14N-nuclear quadrupole hyperfine components for the A- and E-methyl-internal-rotation tunneling states, were fit using XIAM: A = 3678.4360(7) MHz, B = 1037.5616(3) MHz, and C = 944.2045(3) MHz, and the barrier to methyl torsion was found to be 393.54(9) cm−1. Comparison of model and spectroscopic moments of inertia is insufficient to conclusively assign the conformational structure. Analysis of second moments of inertia, dipole moment projections, and nuclear quadrupole hyperfine constants provides sufficient additional evidence to determine that the rotational spectrum is from a structure with an intramolecular hydrogen bond from the imino hydrogen to the carbonyl oxygen and with Cγendo.
Laser-ablation Fourier-transform microwave spectroscopy has been employed for investigations of larger amino acids including proline7,8 and valine.9 Rotational spectra of the two lowest energy conformers of proline were reported first.7 The two lowest energy conformers of proline have the trans-COOH configuration with an intramolecular hydrogen bond to the imino nitrogen. The conformers are distinguished by different ring puckering: Cγ-endo (lowest energy) and Cγ-exo (+3.2 kJ mol−1). Endo refers to puckering toward the same side of the ring as the carboxylic acid. Proline conformers with the cis-COOH arrangement and an intramolecular hydrogen bond from the imino hydrogen to the carbonyl oxygen were calculated to be higher in energy (8.9 kJ mol−1 and 9.4 kJ mol−1); spectra from these conformers were found and reported later.8 The higher-energy conformers have Cγ-exo and Cγ-endo ring puckering, respectively. Two conformations of neutral valine were identified from rotational spectra. Both conformers have the same orientation of the isopropyl group (χ1 = Hβ–Cβ–Cα–Hα ≈ −60°; χ1 is standard notation for the first torsional angle of an amino acid side chain) for each of the two backbone conformations observed for glycine.9
Derivatization of the amino acid backbone structure affects the intramolecular hydrogen bonding networks and may also influence the relative energies for side chain orientations and conformational preferences. The carboxylic acid of the amino acid is replaced by an amide in prolinamide and valinamide, and only a single conformer, stabilized by an intramolecular hydrogen bond from the amide to the amino nitrogen, was observed in the rotational spectrum of each species.10,11 The isopropyl side group is oriented with χ1 = −62° in valinamide.11 However, we recently reported the rotational spectra of two conformers of valine methyl ester.12 Both conformers are stabilized by a network of bifurcated hydrogen bonds from the amine to the carbonyl oxygen, similar to the lowest energy conformation of glycine, with two different orientations of the isopropyl side chain: χ1 = −64.0° and χ1 = 173.6°. Interestingly, the conformer with χ1 = 173.6° had not been previously detected in the rotational spectra of neutral valine or valinamide.
In the present investigation we report the rotational spectra and conformational structures of proline methyl ester (PrOMe); the structure of PrOMe is compared to neutral proline and prolinamide in Fig. 1. The pyrrolidine ring adds significant complexity to the possible conformational structures. To relieve torsional strain, the five-membered ring adopts envelope or twist (half-chair) structures, with the puckers either endo or exo at different ring positions. While the ester blocks acid-to-imino-nitrogen hydrogen bonding, PrOMe conformers may be stabilized by hydrogen bonds from the imino hydrogen to the carbonyl or ester oxygens. The intramolecular hydrogen bonding in PrOMe may also influence the pyrrolidine ring puckering conformations compared to prolinamide and neutral proline.
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Fig. 1 Numbering scheme for (A) PrOMe and comparison to the structures of (B) neutral proline and (C) prolinamide. |
L-Proline methyl ester hydrochloride (98% pure) was purchased from Sigma-Aldrich. Free L-proline methyl ester was isolated following a previously reported procedure.20 In an oven-dried 100 mL round bottom flask, L-proline methyl ester hydrogen chloride salt (10.0 g, 60.6 mmol, 1 eq.) was mixed with chloroform (45 mL) under argon gas. A solution of triethylamine (8.44 mL, 60.6 mmol, 1 eq.) in chloroform was added dropwise. The reaction mixture was stirred for 4 hours at room temperature and then heated to reflux for an hour. The mixture was then cooled to room temperature and concentrated to obtain a white solid. The obtained crude was diluted with diethyl ether, filtered, and washed with diethyl ether. The filtrate was concentrated to obtain L-proline methyl ester as a free amino ester (7.05 g, 90%, yellow oil). 1H NMR (400 MHz, CDCl3) δ 3.74 (dd, J = 8.7, 5.7 Hz, 1H), 3.69 (s, 3H), 3.04 (dt, J = 10.2, 6.7 Hz, 1H), 2.93–2.82 (m, 1H), 2.45 (s, 1H), 2.17–2.03 (m, 1H), 1.86–1.68 (m, 3H). Characterization data are consistent with the reported literature.21
A high-resolution mini cavity-based Fourier-transform microwave spectrometer was used to record the rotational spectrum of proline methyl ester in the 9–19 GHz frequency range. The detailed description of the instrument has been provided elsewhere.22 Approximately 0.5 mL of free PrOMe was placed in the reservoir nozzle,23 heated to 85 °C using a Watlow band heater and an Omega CN8201 temperature controller, and carried into the Fabry–Perot resonant cavity with Argon gas at 1 atm backing pressure. The coaxial expansion into the resonator cavity results in a ca. 60 kHz Doppler splitting of the observed transitions. The Nyquist digital frequency resolution of the spectrometer is 2.5 kHz, but experimental uncertainties depend on actual linewidths and line shapes, which may be distorted by overlapping transitions. We estimate that the experimental line uncertainties are 7–10 kHz, with some congested transitions having uncertainties approaching 20 kHz. A portion of the microwave spectrum of PrOMe, with resolved nuclear quadrupole hyperfine and tunneling splittings, is shown in Fig. 2.
Spectral fitting of rotational and nuclear quadrupole hyperfine transitions from both the A and E methyl internal rotation states was performed using XIAM.24 This fitting program is based on the combined-axis method25 and can be used to obtain the rotational constants, principal nuclear quadrupole coupling constants (χaa, χbb, and χcc), barrier to methyl internal rotation (V3), and the angles between the internal rotation axis and the principal inertial axes. The rotor moment of inertia was fixed to 3.2 amu Å2.
A/MHz | B/MHz | C/MHz | ΔIrms/amu Å2 | χ aa /MHz | χ bb /MHz | χ cc /MHz | |
---|---|---|---|---|---|---|---|
Conformer 1 Cγexo/Cδendo | |||||||
ωB97XD/6-311++G(d,p) | 3761.186 | 1029.830 | 895.284 | 17.11 | 1.018 | 2.4856 | −3.5036 |
MP2/6-311++G(d,p) | 3685.038 | 1042.925 | 912.522 | 10.83 | 0.4395 | 2.2466 | −2.6861 |
ωB97XD/aug-cc-pVDZ | 3728.661 | 1031.110 | 895.682 | 16.87 | 0.8216 | 2.3305 | −3.1521 |
MP2/aug-cc-pVDZ | 3580.901 | 1048.502 | 918.755 | 9.30 | 0.0224 | 1.9374 | −1.9598 |
Conformer 2 Cγendo | |||||||
ωB97XD/6-311++G(d,p) | 3672.991 | 1044.732 | 946.416 | 2.06 | 2.4440 | 1.9160 | −4.3600 |
MP2/6-311++G(d,p) | 3779.396 | 1018.287 | 937.272 | 6.17 | 2.6905 | 1.4068 | −4.0973 |
ωB97XD/aug-cc-pVDZ | 3731.363 | 1026.436 | 931.582 | 5.30 | 2.4846 | 1.5128 | −3.9974 |
MP2/aug-cc-pVDZ | 3711.213 | 1017.340 | 936.800 | 6.14 | 2.2799 | 1.3183 | −3.5982 |
Conformer 5 Cγendo/Cδexo | |||||||
ωB97XD/6-311++G(d,p) | 3694.479 | 1036.012 | 920.162 | 8.09 | 0.9834 | 2.6446 | −3.6280 |
MP2/6-311++G(d,p) | 3682.824 | 1038.214 | 929.014 | 5.06 | 0.8920 | 2.3553 | −3.2473 |
ωB97XD/aug-cc-pVDZ | 3693.649 | 1030.293 | 907.976 | 12.49 | 1.0297 | 2.5152 | −3.5448 |
MP2/aug-cc-pVDZ | 3650.192 | 1029.363 | 920.318 | 8.35 | 0.7767 | 2.1055 | −2.8822 |
A rotational spectrum consisting of 39 R-branch (16 a-type, 18 b-type, and 5 c-type) and 12 Q-branch transitions was assigned for PrOMe. Each rotational transition was split into A- and E-state tunneling components from internal rotation of the methyl group and further split into nuclear quadrupole hyperfine components. The hyperfine components of several rotational transitions could not be resolved as they overlap each other; these congested transitions were not included in the fit. The frequencies of all resolved hyperfine components for PrOMe are available in the ESI,† Table S31. 144 A-state hyperfine components and 149 E-state components were assigned and fit using XIAM. The fit has an RMS error of 7.4 kHz, and the best-fit values for the spectroscopic constants and tunneling parameters are given in Table 2.
Parameter | XIAM |
---|---|
a Polar-coordinate angles describing the orientation of the internal rotor axis. b Number of rotational transitions in the fit. c Root-mean-square deviation of the fit. | |
A/MHz | 3678.4360(7) |
B/MHz | 1037.5616(3) |
C/MHz | 944.2045(3) |
Δ J /kHz | 0.423(15) |
Δ JK /kHz | −2.889(7) |
Δ k /kHz | 11.41(6) |
δ J /kHz | 0.0367(8) |
δ K /kHz | 0.97(9) |
P aa /amu Å2 | 442.4684(3) |
P bb /amu Å2 | 92.7747(3) |
P cc /amu Å2 | 44.6149(3) |
χ aa /MHz | 2.302(6) |
χ bb /MHz | 1.593(5) |
χ cc /MHz | −3.894(10) |
V 3/cm−1 | 393.54(9) |
ε /° | 299.6(11) |
δ /° | 28.40(10) |
∠(i, a)/° | 28.4(11) |
∠(i, b)/° | 76.4(5) |
∠(i, c)/° | 114.4(4) |
N | 51 |
RMSc/kHz | 7.4 |
Extensive searches for transitions arising from the 13C isotopologues were conducted, but no isotopologue spectra could be identified or assigned. A few very weak transitions were found in these searches, but these transitions were not consistent with the pattern expected for the six different 13C species. Instead these few remaining unassigned transitions likely arise from a high-energy (low population) conformer of the most abundant isotopic species.
Nominal descriptions of puckering structure are given for each conformer in Table 1 and Tables S1–S4 (ESI†). Pseudorotational coordinates were developed by Kilpatrick et al.26 to conveniently describe the structure of cyclopentane. The phase angle (P) and amplitude (χmax) provide a useful description of puckering and can be determined from the endocyclic torsion angles (χ0 − χ4; Fig. 1A) of the five-membered ring. The pseudorotational concept has been applied to pyrrolidine rings such as found in proline.27 The torsional angles and origin of the pseudorotational cycle for PrOMe were defined as described by Westhof and Sundaralingam.28 The pseudorotational coordinates can be calculated using29
The pseudorotational coordinates show small variations in puckering for each model among the different computational approaches. These variations lead to ranges of up to 180 MHz for the A rotational constants of model conformers 1 and 2 among the different computational approaches (Table 1). The B and C rotational constants for these conformers are generally within a 25 MHz range. The root mean square difference between the model and experimental moments of inertia, (ΔI)rms where ΔI = Ix(obs.) − Ix(model) and Ix is the moment of inertia about the a, b, and c axes, is often used to identify the structure that best reproduces the spectroscopically determined moments of inertia. The (ΔI)rms values (Table 1) for conformer 2 show consistently better agreement with experiment than those for conformer 1. Given the variation in the calculated rotational constants for each conformer model, (ΔI)rms values alone are insufficient for a conclusive assignment of the spectrum to conformer 2. Moreover, the (ΔI)rms values for conformer 5 are also small, indicating that that this higher energy conformer may also be consistent with the spectroscopic rotational constants.
The second moments of inertia, Paa, Pbb, and Pcc often provide a more definitive assignment of the structure to the spectrum. The second moment along the a-axis was calculated from the model structures using
The electronic properties of the models may also help identify the conformer detected spectroscopically. All models of conformer 2 have a large projection of the dipole moment onto the b-inertial axis (μb), with μb > μa > μc (Tables S1–S4, ESI†). Models of conformer 5 predict that μb and μc will be almost equally large. The relative intensity of two different types of rotational transitions originating from the same rotational state depends in large part on the ratio of the projections of the dipole moments, so the b-type transitions associated with conformer 2 should be much more intense than the c-type transitions. For conformer 5, the b- and c-type transitions should have similar intensities. Fig. 4 compares a portion of the b-type transition 414–303 acquired by averaging 120 free induction decays to a portion of the c-type transition 413–303 acquired by averaging 13000 free induction decays. Fig. 4 demonstrates that the b-type transitions are approximately 10 times more intense than the c-type transitions, consistent with conformer 2.
Alonso et al.8 demonstrated that the experimental nuclear quadrupole coupling constants, obtained by fitting resolved nuclear quadrupole hyperfine components of rotational transitions, may be useful for conformational assignments. The calculated values of the quadrupole coupling constants for the different conformer models are given in Table 1 and Tables S1–S4 (ESI†), and the spectroscopically determined values are given in Table 2. Table S33 (ESI†) gives the root mean squares of the differences between model and experimental nuclear quadrupole coupling constants for each of the PrOMe conformers. The RMS differences range from 0.93–1.74 MHz for conformer 1, from 0.13–0.34 MHz for conformer 2, and from 0.93–1.1 MHz for conformer 5. The value of the χaa nuclear quadrupole coupling constants provides the clearest differentiation among the model conformers. Experimentally, χaa = 2.302(6) MHz; the ranges of χaa calculated for the model structures are 0.02–1.02 MHz for conformer 1, 2.28–2.69 MHz for conformer 2, and 0.78–1.03 MHz for conformer 5. The calculated dipole moment projections and nuclear quadrupole coupling constants conclusively identify the spectrum as arising from conformer 2.
Structural information may also be deduced from the rotor-axis angles calculated from fitting the methyl internal rotation splittings. The angles that the methyl rotor axis makes with the a-, b-, and c-inertial axes (∠(i, x) where x = a, b, or c) were calculated from the XIAM fitting and are given in Table 2. Rotor axis angles were also calculated for each of the model conformers, and these values are given in Tables S1–S4 (ESI†). The rotor-axis angles are very similar for most conformers, and the uncertainties of the rotor-axis angle values obtained from XIAM fitting are 0.5–1°. The comparison of model and experimental values is again made with root mean square differences, and these are given in Table S34 (ESI†) for each model conformer. The RMS differences are very small, 1–3 degrees, for most conformers, and the rotor axis angles do not provide any additional evidence supporting any of the conformer models for PrOMe.
The V3 barrier to internal rotation of the ester methyl group was obtained from fitting the A- and E-state transitions using XIAM. The best fit value for the methyl V3 in PrOMe is 393.54(9) cm−1, which is very close to the experimentally determined barriers for related methyl ester systems. The rotational spectrum of glycine methyl ester was assigned to a single conformer,32 and the methyl V3 barrier was found to be 411.66(10) cm−1. The methyl ester barrier was found to be 401.64(19) and 409.74(16) cm−1 for the two conformers of valine methyl ester.12 The two different methyl groups in N-acetyl alanine methyl ester cause a complicated pattern of tunneling pairs (AA, AE, and EA); the barriers for the methoxy and acetyl methyl groups were found to be 396.46(7) cm−1 and 64.96(4) cm−1, respectively.33
The lowest energy model (ωB97XD/6-311++G(d,p)) conformers of PrOMe, 1 and 2, are stabilized by similar intramolecular hydrogen bonds to the carbonyl oxygen. The imino NH⋯O9 distance is 2.37 Å in conformer 1 and 2.24 Å in conformer 2. Despite the close interaction distances, these hydrogen bonds are expected to be weak because the N⋯H⋯O9 angles are 105° and 112° respectively. There are additional close interactions to the ester oxygen (CβH⋯O2) in both model conformers. For conformer 1 the CβH⋯O2 distances are 2.83 and 3.19 Å, but for conformer 2 there is only one 2.67-Å interaction. Model conformers with intramolecular hydrogen bonds to the ester oxygen (NH⋯O2) were all significantly higher in energy, as was also found by Braga et al.34 both computationally (ωB97XD and MP2 with aug-cc-pVTZ) and by analysis of 3JHH NMR coupling constants in solvents of varying polarity. The relative energies of the conformers are expected to depend on the aggregate of all H-bonding and other weak interactions.
The theoretical methods vary significantly in their predictions of spectroscopic parameters. The ωB97XD/6-311++G(d,p) model is in best agreement with the experimental moments of inertia and second moments, but the ωB97XD/aug-cc-pVDZ method modeled the nuclear quadrupole coupling constants better. Three theoretical methods predict conformer 1 to be slightly more stable, but we only observed one rotational spectrum that could be assigned to a single conformation: conformer 2. We hypothesize that conformer 2 is in fact slightly lower energy than 1, consistent with the MP2/aug-cc-pVDZ model, and that the argon expansion significantly relaxes population from higher energy conformations through interconversion barriers less than 5 kJ mol−1.35,36 The barriers to interconvert puckering conformations of pyrrolidine were calculated to be 2–4 kJ mol−1.37–39 Experiments conducted using neon are likely to exhibit less conformational relaxation.
The Cγ-endo structure of PrOMe (ωB97XD/6-311++G(d,p): P = 192°; χmax = 39°), conformer 2, that we report here compares well with puckering conformations in similar systems. Czinki et al.30 reported a Cγ-endo structure of neutral proline as the lowest energy using several high-level computational methods; this structure has P = 198° (reported as P = −90° with their coordinate origin) and χmax = 39°. The Cγ-exo (P = 16°) conformer of neutral proline was calculated to be 1–3 kJ mol−1 higher in energy. The initial report of the rotational spectra of neutral proline in neon characterized two conformers – Cγ-endo and Cγ-exo, both with the carboxylic acid donating a hydrogen bond to the imino nitrogen; the Cγ-endo conformer was associated with stronger transitions.7 Likewise, the rotational spectra of 3 isotopologues of prolinamide in argon were best described by a Cβ-exo/Cγ-endo pyrrolidine ring structure with P = 185° and χmax = 33°.10 While the energy ordering of the puckering conformers may depend on second-order effects such as interactions with the backbone moieties, the spectral assignments for these species indicate a gas-phase ring puckering preference near P = 190° and χmax = 35–40° for prolyl systems.
Footnote |
† Electronic supplementary information (ESI) available: Principal-axis atomic coordinates of the optimized model conformers, summaries of the principal results of the model conformers, and frequencies of the assigned rotational transitions. See DOI: https://doi.org/10.1039/d5cp00898k |
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