| Literature DB >> 34885980 |
Vincenzo Barone1, Marco Fusè1, Sandra Mónica Vieira Pinto1, Nicola Tasinato1.
Abstract
Nitroxide radicals are characterized by a long-lived open-shell electronic ground state and are strongly sensitive to the chemical environment, thus representing ideal spin probes and spin labels for paramagnetic biomolecules and materials. However, the interpretation of spectroscopic parameters in structural and dynamic terms requires the aid of accurate quantum chemical computations. In this paper we validate a computational model rooted into double-hybrid functionals and second order vibrational perturbation theory. Then, we provide reference quantum chemical results for the structures, vibrational frequencies and other spectroscopic features of a large panel of nitroxides of current biological and/or technological interest.Entities:
Keywords: IR spectra; anharmonicity; geometry; large amplitude motion; magnetic properties; nitroxide radicals
Year: 2021 PMID: 34885980 PMCID: PMC8659111 DOI: 10.3390/molecules26237404
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Figure 1Structure and labeling of the investigated nitroxides.
Geometrical parameters of the dimethylnitroxide template molecule at different levels of theory.
| Minimum | Transition State | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Level of Theory | Basis Sets | rNO | rCN | CNC | CCNO | rNO | rCN | CNC | CCNO |
| B3 | SNSD | 1.2798 | 1.4593 | 118.6 | 153.9 | 1.2804 | 1.4545 | 119.4 | 180.0 |
| B2 | maugTZ | 1.2796 | 1.4549 | 118.7 | 153.3 | 1.2802 | 1.4504 | 119.3 | 180.0 |
| CCSD(T)-F12 | DZ-F12 | 1.2773 | 1.4554 | 118.3 | 150.8 | 1.2774 | 1.4491 | 119.6 | 180.0 |
Figure 2Graphical representation of the PES along the NO out-of-plane large amplitude motion computed at the B2 level. The TS energy was corrected by the values obtained at the CCSD(T)-F12/CC-PVDZ-F12 level of theory. The vibrational levels and wave functions with contribution above 0.5% at 300 K, computed using the variational DVR-based approach, are also reported. The color code reflects the value of a in MHz.
a (in MHz) for the dimethylnitroxide template molecule computed at B2 geometries employing different QC approaches.
| Me | |||
|---|---|---|---|
|
|
|
|
|
| B3 | EPR(III) | 39.38 | 24.46 |
| BHLYP | EPR(III) | 43.63 | 31.54 |
| B2 | EPR(III) | 44.21 | 29.26 |
| CCSD(T) | EPR(III) | 44.26 | 30.20 |
Figure 3a profile as a function of the out of plane angle at different levels of theory in conjunction with the EPR(III) basis set. The curves were fitted with functions.
Geometric parameters of the selected molecules at the B2 level of theory.
| Mol | NO | C | C | C | C | C | C |
|---|---|---|---|---|---|---|---|
|
| 1.280 | 1.455 | 118.70 | 153.30 | |||
|
| 1.267 | 1.460 | 1.470 | 120.98 | 117.37 | 120.18 | 165.77 |
|
| 1.284 | 1.507 | 1.506 | 127.26 | 116.18 | 113.10 | 158.02 |
|
| 1.282 | 1.503 | 1.420 | 125.17 | 117.79 | 117.01 | 177.76 |
|
| 1.283 | 1.421 | 123.13 | 118.43 | 180.00 | ||
|
| 1.286 | 1.418 | 123.06 | 118.47 | 180.00 | ||
|
| 1.282 | 1.495 | 124.11 | 115.81 | 155.75 | ||
|
| 1.280 | 1.496 | 124.06 | 115.62 | 154.56 | ||
|
| 1.281 | 1.494 | 123.97 | 115.87 | 155.74 | ||
|
| 1.271 | 1.481 | 1.483 | 115.55 | 121.88 | 122.50 | 176.97 |
|
| 1.271 | 1.476 | 1.475 | 113.90 | 122.43 | 123.39 | 174.11 |
|
| 1.270 | 1.487 | 1.481 | 114.47 | 122.54 | 122.14 | 169.69 |
|
| 1.270 | 1.486 | 1.480 | 114.84 | 122.71 | 122.45 | 180.00 |
|
| 1.270 | 1.485 | 1.485 | 115.63 | 122.22 | 122.15 | 180.000 |
|
| 1.271 | 1.485 | 1.485 | 115.59 | 122.21 | 122.21 | 180.00 |
|
| 1.270 | 1.484 | 1.389 | 111.71 | 123.68 | 124.57 | 177.83 |
Only the most stable (R,S) configuration is reported.
Experimental vs. computed vibrational frequencies (cm) for the NO stretching of different nitroxides labelled according to Figure 1.
| Mol. |
|
|
|
|
|
|
|---|---|---|---|---|---|---|
|
| 1397 | 1439 | 1410 | 29 | 1437 | 1408 |
|
| 1342 | 1384 | 1350 | 34 | 1359 | 1325 |
|
| 1370 | 1412 | 1379 | 33 | 1387 | 1354 |
|
| 1342 | 1392 | 1360 | 32 | 1379 | 1347 |
|
| 1346 | 1400 | 1369 | 31 | 1392 | 1361 |
|
| 1339 | 1377 | 1345 | 31 | 1368 | 1336 |
|
| 1380 | 1392 | 1362 | 30 | 1398 | 1367 |
|
| 1371 | 1401 | 1370 | 31 | 1397 | 1366 |
|
| - | 1472 | 1440 | 32 | 1453 | 1421 |
|
| - | 1485 | 1456 | 29 | 1461 | 1432 |
|
| 1438 | 1481 | 1453 | 28 | 1457 | 1429 |
|
| 1435 | 1487 | 1455 | 32 | 1460 | 1427 |
|
| 1428 | 1486 | 1452 | 34 | 1458 | 1424 |
|
| 1427 | 1488 | 1454 | 34 | 1465 | 1431 |
|
| - | 1468 | 1438 | 30 | 1456 | 1426 |
Gas-phase; KBr; tBuOH solution; CCl solution; e Nujol; .
Figure 4Comparison between experimental frequencies of NO stretchings and the counterparts issued from scaled harmonic (B3 in orange and B2 in light blue) and anharmonic (B3 in red and hybrid in dark blue) frequencies. The scaling factors are 0.976 and 0.980 for and , respectively. Vertical lines separate the different nitroxide families defined in the main text.
Reduced dimensionality results obtained employing a threshold of 0.03.
| Mol |
|
| Modes |
|---|---|---|---|
|
| 29 | 29 | 7 |
|
| 33 | 35 | 11 |
|
| 32 | 33 | 11 |
|
| 31 | 32 | 7 |
|
| 30 | 30 | 8 |
|
| 30 | 35 | 7 |
Equilibrium NO bond length (Å), out of plane angle (in degrees) and a (in MHz) computed at the B2 level together with high-level corrections from the template molecule model (TM in MHz) and B3 vibrational corrections at 300 K ( in MHz). In the last column, the correction obtained by Equation (1) ( in MHz) is reported. The column reports the difference between the CNC angle of the real system and that of the dimethylnitroxide model (a) at the same angle.
| Mol | NO |
|
| a |
|
| |
|---|---|---|---|---|---|---|---|
|
| 1.267 | 1.4 | 12.26 | 23.12 | 2.71 | 0.68 | 0.63 |
|
| 1.284 | 8.0 | 20.13 | 40.14 | 1.66 | 0.44 | 0.10 |
|
| 1.282 | 5.6 | 2.00 | 25.54 | 2.62 | 1.05 | 0.94 |
|
| 1.283 | 3.6 | 0.00 | 20.11 | 1.10 | 0.99 | 0.95 |
|
| 1.286 | 3.5 | 0.00 | 21.10 | 2.73 | 0.99 | 0.95 |
|
| 1.282 | 5.1 | 21.70 | 40.42 | 1.14 | 0.22 | −0.03 |
|
| 1.280 | 5.2 | 22.79 | 40.62 | 2.07 | 0.09 | −0.12 |
|
| 1.281 | 4.9 | 21.70 | 40.18 | 1.34 | 0.20 | −0.03 |
|
| 1.271 | −4.0 | 2.60 | 30.82 | 6.23 | 1.03 | 0.93 |
|
| 1.271 | −5.7 | 4.97 | 31.21 | 7.17 | 0.99 | 0.89 |
|
| 1.270 | −5.1 | 8.68 | 32.83 | 6.22 | 0.82 | 0.78 |
|
| 1.270 | −4.7 | 0.00 | 30.66 | 5.21 | 0.98 | 0.95 |
|
| 1.271 | −3.9 | 0.00 | 30.64 | 2.70 | 0.98 | 0.95 |
|
| 1.270 | −3.9 | 0.00 | 30.45 | 5.47 | 0.99 | 0.95 |
|
| 1.270 | −7.8 | 1.80 | 20.27 | 4.40 | 0.98 | 0.94 |
= 7.13 × cos) − 6.18.