| Literature DB >> 28717218 |
Gregory K Pierens1, T K Venkatachalam2, David C Reutens1.
Abstract
A detailed NMR investigation of the chemical shifts of hydrogen and carbon atoms associated with the structure of the naturally occurring alkaloid colchicine was conducted using high field NMR. Initially, the experimental chemical shifts for colchicine in chloroform and DMSO were compared to the values calculated using density functional theory (DFT). There were significant deviations observed for the chloroform solvent, but these were only slight in the DMSO solution. Dilution of the chloroform solution changed the experimental chemical shifts and improved agreement with the DFT calculations, suggesting self-aggregation at higher concentrations. A dimeric model was proposed for which agreement with the DFT calculated chemical shifts was better than for corresponding monomeric structures. Three further solvents were studied to evaluate changes in chemical shift values at different dilutions. Chloroform, benzene and water showed significant chemical shift changes implying self-aggregation, whereas DMSO and acetone did not show significant change upon dilution.Entities:
Year: 2017 PMID: 28717218 PMCID: PMC5514032 DOI: 10.1038/s41598-017-06005-5
Source DB: PubMed Journal: Sci Rep ISSN: 2045-2322 Impact factor: 4.379
1H Experimental and DFT calculated chemical shifts for colchicine in chloroform and DMSO solvents using two functional and basis set combinations.
| Proton | Chloroform (46 mM) | DMSO (46 mM) | ||||
|---|---|---|---|---|---|---|
| Measured | DFT Calc.a | DFT Calc.b | Measured | DFT Calc.a | DFT Calc.b | |
| H_4 | 6.52 | 6.41 | 6.37 | 6.76 | 6.48 | 6.45 |
| H_5 | 2.51 | 2.44 | 2.39 | 2.58 | 2.42 | 2.36 |
| H_5 | 2.37 | 2.38 | 2.37 | 2.21 | 2.25 | 2.24 |
| H_6 | 2.31 | 2.13 | 2.12 | 2.01 | 2.06 | 2.06 |
| H_6 | 1.91 | 1.69 | 1.65 | 1.81 | 1.66 | 1.63 |
| H_7 | 4.63 | 4.48 | 4.48 | 4.32 | 4.31 | 4.31 |
| H_8 | 7.57 | 7.19 | 7.17 | 7.13 | 7.25 | 7.23 |
| H_11 | 6.87 | 6.56 | 6.51 | 7.02 | 6.72 | 6.67 |
| H_12 | 7.33 | 7.06 | 7.04 | 7.10 | 7.10 | 7.08 |
| H_13 | 3.63 | 3.56 | 3.60 | 3.52 | 3.52 | 3.56 |
| H_14 | 3.92 | 3.68 | 3.72 | 3.78 | 3.59 | 3.63 |
| H_15 | 3.88 | 3.70 | 3.75 | 3.83 | 3.65 | 3.70 |
| H_17 | 1.95 | 1.78 | 1.76 | 1.84 | 1.72 | 1.69 |
| H_18 | 3.99 | 3.75 | 3.78 | 3.87 | 3.73 | 3.77 |
| H_N | 7.85 | 5.33 | 5.35 | 8.57 | 5.58 | 5.61 |
| MAEc |
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| MAE |
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| Max. Dev.c |
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| Max. Dev. |
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aMpw1pw91/6-311 + g(2d,p) with IEPCM chloroform or dmso solvation. bB3LYP/6-311 + g(2d,p) with IEPCM chloroform or dmso solvation. cDoes not include NH proton.
13C experimental and DFT calculated chemical shifts for colchicine in chloroform and DMSO solvents using two functional and basis set combinations.
| 13C | Chloroform (46 mM) | DMSO (46 mM) | ||||
|---|---|---|---|---|---|---|
| Measured | DFT Calc.a | DFT Calc.b | Measured | DFT Calc.a | DFT Calc.b | |
| C_1 | 151.2 | 150.4 | 151.1 | 150.5 | 148.9 | 149.6 |
| C_2 | 141.6 | 140.5 | 141.3 | 140.7 | 139.1 | 140.0 |
| C_3 | 153.6 | 152.7 | 153.4 | 152.9 | 151.8 | 152.5 |
| C_4 | 107.3 | 104.4 | 103.9 | 107.7 | 104.5 | 104.0 |
| C_4a | 134.2 | 135.4 | 136.1 | 134.2 | 135.1 | 135.8 |
| C_5 | 29.9 | 31.0 | 31.6 | 29.2 | 30.4 | 31.0 |
| C_6 | 36.5 | 38.9 | 40.1 | 35.8 | 38.2 | 39.3 |
| C_7 | 52.6 | 52.1 | 52.8 | 51.2 | 52.2 | 53.0 |
| C_7a | 152.3 | 150.6 | 151.1 | 150.8 | 150.4 | 150.8 |
| C_8 | 130.5 | 130.9 | 130.4 | 130.4 | 129.6 | 129.1 |
| C_9 | 179.5 | 174.5 | 174.4 | 178.0 | 173.8 | 173.7 |
| C_10 | 163.8 | 164.2 | 164.8 | 163.5 | 163.0 | 163.4 |
| C_11 | 112.8 | 109.0 | 108.6 | 112.1 | 109.5 | 109.2 |
| C_12 | 135.6 | 136.6 | 136.4 | 134.4 | 136.2 | 135.9 |
| C_12a | 136.9 | 135.6 | 136.4 | 135.2 | 135.4 | 136.2 |
| C_12b | 125.6 | 126.4 | 127.1 | 125.4 | 124.9 | 125.6 |
| C_13 | 61.6 | 58.5 | 58.6 | 60.7 | 58.0 | 58.1 |
| C_14 | 61.4 | 58.0 | 58.2 | 60.8 | 57.9 | 58.1 |
| C_15 | 56.1 | 52.9 | 53.1 | 55.8 | 52.9 | 53.2 |
| C_16 | 170.1 | 166.4 | 166.7 | 168.5 | 166.7 | 166.9 |
| C_17 | 22.8 | 21.9 | 21.4 | 22.4 | 21.8 | 21.4 |
| C_18 | 56.4 | 53.3 | 53.5 | 56.0 | 53.3 | 53.5 |
| MAE |
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| MAE |
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| Max. Dev. |
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| Max. Dev. |
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aMpw1pw91/6-311 + g(2d,p) with IEPCM chloroform or dmso solvation. bB3LYP/6-311 + g(2d,p) with IEPCM chloroform or dmso solvation.
Figure 1The numbering system used for colchicine (1) molecule for NMR analysis.
Comparison of 1H chemical shifts of colchicine in chloroform and DMSO at concentrations of 46 mM and 0.46 mM.
| 1H | Chloroform | DMSO | ||||
|---|---|---|---|---|---|---|
| 46 mM | 0.46 mM | change | 46 mM | 0.46 mM | change | |
| H_4 | 6.52 | 6.52 | 0.00 | 6.76 | 6.76 | 0.00 |
| H_5 | 2.51 | 2.52 | −0.01 | 2.58 | 2.52 | 0.06 |
| H_5 | 2.37 | 2.41 | −0.04 | 2.21 | 2.21 | 0.00 |
| H_6 | 2.31 | 2.22 | 0.09 | 2.01 | 2.00 | 0.01 |
| H_6 | 1.91 | 1.76 | 0.15 | 1.81 | 1.81 | 0.00 |
| H_7 | 4.63 | 4.63 | 0.00 | 4.32 | 4.32 | 0.00 |
| H_8 | 7.57 | 7.34 | 0.23 | 7.13 | 7.13 | 0.00 |
| H_11 | 6.87 | 6.79 | 0.08 | 7.02 | 7.02 | 0.00 |
| H_12 | 7.33 | 7.27 | 0.06 | 7.10 | 7.10 | 0.00 |
| H_13 | 3.63 | 3.63 | 0.00 | 3.52 | 3.51 | 0.01 |
| H_14 | 3.92 | 3.93 | −0.01 | 3.78 | 3.78 | 0.00 |
| H_15 | 3.88 | 3.89 | −0.01 | 3.83 | 3.83 | 0.00 |
| H_17 | 1.95 | 1.99 | −0.04 | 1.84 | 1.84 | 0.00 |
| H_18 | 3.99 | 3.98 | 0.01 | 3.87 | 3.87 | 0.00 |
| H_N | 7.85 | 5.89 | 1.96 | 8.57 | 8.55 | 0.02 |
Comparison of DFT calculated and experimentally measured chemical shifts at 46 mM and 0.46 mM.
| 1H | Chloroform (46 mM) | Chloroform (0.46 mM) | ||||
|---|---|---|---|---|---|---|
| experimental | calculated | deviation | experimental | calculated | deviation | |
| H_4 | 6.52 | 6.41 | 0.11 | 6.52 | 6.41 | 0.11 |
| H_5 | 2.51 | 2.44 | 0.07 | 2.52 | 2.44 | 0.08 |
| H_5 | 2.37 | 2.38 | 0.01 | 2.41 | 2.38 | 0.03 |
| H_6 | 2.31 | 2.13 | 0.18 | 2.22 | 2.13 | 0.09 |
| H_6 | 1.91 | 1.69 | 0.22 | 1.76 | 1.69 | 0.07 |
| H_7 | 4.63 | 4.48 | 0.15 | 4.63 | 4.48 | 0.15 |
| H_8 | 7.57 | 7.19 | 0.38 | 7.34 | 7.19 | 0.15 |
| H_11 | 6.87 | 6.56 | 0.31 | 6.79 | 6.56 | 0.23 |
| H_12 | 7.33 | 7.06 | 0.27 | 7.27 | 7.06 | 0.21 |
| H_13 | 3.63 | 3.56 | 0.07 | 3.63 | 3.56 | 0.07 |
| H_14 | 3.92 | 3.68 | 0.24 | 3.93 | 3.68 | 0.25 |
| H_15 | 3.88 | 3.70 | 0.18 | 3.89 | 3.70 | 0.19 |
| H_17 | 1.95 | 1.78 | 0.17 | 1.99 | 1.78 | 0.21 |
| H_18 | 3.99 | 3.75 | 0.24 | 3.98 | 3.75 | 0.23 |
| H_N | 7.85 | 5.33 | 2.52 | 5.89 | 5.33 | 0.56 |
| MAE |
| MAE |
| |||
Figure 2Overlay of the DOSY spectra for the 46 mM and 0.36 mM colchicine solutions in chloroform.
Figure 3The partial structure of colchicine molecule used for DFT calculations.
Comparison of key DFT calculated NMR chemical shifts between colchicine 1 and Monomer 2.
| 1H | 1 | Monomer 2 |
|---|---|---|
| H-7 | 4.48 | 4.44 |
| H-8 | 7.19 | 7.26 |
| H-11 | 6.56 | 6.57 |
| H-12 | 7.06 | 7.08 |
| H-17 | 1.78 | 1.81 |
| H-18 | 3.75 | 3.73 |
Selected experimental and DFT calculated proton chemical shifts for Monomer 2 and Dimer 2 compared to the 46 mM colchicine in chloroform.
| 1H | Experimental | Calculated DFT chemical shifts (ppm) | ||
|---|---|---|---|---|
| 46 mM | Monomer 2a | Dimer 2a | Dimer 2b | |
| H-7 | 4.63 | 4.44 | 4.26 | 4.25 |
| H-8 | 7.57 | 7.26 | 7.84 | 8.01 |
| H-11 | 6.87 | 6.57 | 6.79 | 6.67 |
| H-12 | 7.33 | 7.08 | 7.23 | 7.28 |
| H-17 | 1.95 | 1.81 | 1.60 | 1.68 |
| H-18 | 3.99 | 3.73 | 3.80 | 3.78 |
| NH | 7.85 | 5.35 | 9.22 | 9.32 |
aCalculated chemical shifts using mpw1pw91/6-311 + g(2d,p). bCalculated chemical shifts using wB97XD/6-311 + g(2d,p).
Selected experimental and DFT calculated proton chemical shifts for Monomer 2 and Dimer 2 compared to the 0.46 mM colchicine in chloroform.
| 1H | Experimental | Calculated DFT chemical shifts | ||
|---|---|---|---|---|
| 0.46 mM | Monomer 2a | Dimer 2a | Dimer 2b | |
| H-7 | 4.63 | 4.44 | 4.26 | 4.25 |
| H-8 | 7.34 | 7.26 | 7.84 | 8.01 |
| H-11 | 6.79 | 6.57 | 6.79 | 6.67 |
| H-12 | 7.27 | 7.08 | 7.23 | 7.28 |
| H-17 | 1.99 | 1.81 | 1.60 | 1.68 |
| H-18 | 3.98 | 3.73 | 3.80 | 3.78 |
| NH | 5.35 | 5.35 | 9.22 | 9.32 |
aCalculated chemical shifts using mpw1pw91/6-311 + g(2d,p). bCalculated chemical shifts using wB97XD/6-311 + g(2d,p).
Figure 4Differences observed in the proton chemical shift values for all the protons in various solvents of colchicine molecule.