On the Efficiency of the Density Functional Theory (DFT)-Based Computational Protocol for 1H and 13C Nuclear Magnetic Resonance (NMR) Chemical Shifts of Natural Products: Studying the Accuracy of the pecS-n (n=1, 2) Basis Sets

被引:11
作者
Rusakov, Yuriy Yu. [1 ]
Semenov, Valentin A. [1 ]
Rusakova, Irina L. [1 ]
机构
[1] Russian Acad Sci, AE Favorsky Irkutsk Inst Chem, Siberian Branch, Favorsky St 1, Irkutsk 664033, Russia
基金
俄罗斯科学基金会;
关键词
pecS-1; pecS-2; H-1; NMR; C-13; N-15; chemical shift; DFT; PEC; natural products; CONSISTENT BASIS-SETS; CORRELATED MOLECULAR CALCULATIONS; GAUSSIAN-BASIS SETS; CHAETOMIUM-COCHLIODES; SHIELDING CONSTANTS; TOXIC METABOLITE; INDOLE; ALKALOIDS; EXCHANGE; ANTIMALARIAL;
D O I
10.3390/ijms241914623
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The basis set issue has always been one of the most important factors of accuracy in the quantum chemical calculations of NMR chemical shifts. In a previous paper, we developed new pecS-n (n = 1, 2) basis sets purposed for the calculations of the NMR chemical shifts of the nuclei of the most popular NMR-active isotopes of 1-2 row elements and successfully approbated these on the DFT calculations of chemical shifts in a limited series of small molecules. In this paper, we demonstrate the performance of the pecS-n (n = 1, 2) basis sets on the calculations of as much as 713 H-1 and 767 C-13 chemical shifts of 23 biologically active natural products with complicated stereochemical structures, carried out using the GIAO-DFT(PBE0) approach. We also proposed new alternative contraction schemes for our basis sets characterized by less contraction depth of the p-shell. New contraction coefficients have been optimized with the property-energy consistent (PEC) method. The accuracies of the pecS-n (n = 1, 2) basis sets of both the original and newly contracted forms were assessed on massive benchmark calculations of proton and carbon chemical shifts of a vast variety of natural products. It was found that less contracted pecS-n (n = 1, 2) basis sets provide no noticeable improvement in accuracy. These calculations represent the most austere test of our basis sets as applied to routine calculations of the NMR chemical shifts of real-life compounds.
引用
收藏
页数:17
相关论文
共 88 条
[1]   Analysis of Sesquiterpene Lactones, Lignans, and Flavonoids in Wormwood (Artemisia absinthium L.) Using High-Performance Liquid Chromatography (HPLC)-Mass Spectrometry, Reversed Phase HPLC, and HPLC-Solid Phase Extraction-Nuclear Magnetic Resonance [J].
Aberham, Anita ;
Cicek, Serhat Sezai ;
Schneider, Peter ;
Stuppner, Hermann .
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY, 2010, 58 (20) :10817-10823
[2]   Toward reliable density functional methods without adjustable parameters: The PBE0 model [J].
Adamo, C ;
Barone, V .
JOURNAL OF CHEMICAL PHYSICS, 1999, 110 (13) :6158-6170
[3]   Toward chemical accuracy in the computation of NMR shieldings: the PBE0 model [J].
Adamo, C ;
Barone, V .
CHEMICAL PHYSICS LETTERS, 1998, 298 (1-3) :113-119
[4]   The Dalton quantum chemistry program system [J].
Aidas, Kestutis ;
Angeli, Celestino ;
Bak, Keld L. ;
Bakken, Vebjorn ;
Bast, Radovan ;
Boman, Linus ;
Christiansen, Ove ;
Cimiraglia, Renzo ;
Coriani, Sonia ;
Dahle, Pal ;
Dalskov, Erik K. ;
Ekstrom, Ulf ;
Enevoldsen, Thomas ;
Eriksen, Janus J. ;
Ettenhuber, Patrick ;
Fernandez, Berta ;
Ferrighi, Lara ;
Fliegl, Heike ;
Frediani, Luca ;
Hald, Kasper ;
Halkier, Asger ;
Hattig, Christof ;
Heiberg, Hanne ;
Helgaker, Trygve ;
Hennum, Alf Christian ;
Hettema, Hinne ;
Hjertenaes, Eirik ;
Host, Stinne ;
Hoyvik, Ida-Marie ;
Iozzi, Maria Francesca ;
Jansik, Branislav ;
Jensen, Hans Jorgen Aa. ;
Jonsson, Dan ;
Jorgensen, Poul ;
Kauczor, Joanna ;
Kirpekar, Sheela ;
Kjrgaard, Thomas ;
Klopper, Wim ;
Knecht, Stefan ;
Kobayashi, Rika ;
Koch, Henrik ;
Kongsted, Jacob ;
Krapp, Andreas ;
Kristensen, Kasper ;
Ligabue, Andrea ;
Lutnaes, Ola B. ;
Melo, Juan I. ;
Mikkelsen, Kurt V. ;
Myhre, Rolf H. ;
Neiss, Christian .
WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE, 2014, 4 (03) :269-284
[5]  
[Anonymous], 2018, Schrodinger Release 2018-4: Desmond Molecular Dynamics System
[6]   SPORIDESMINS .16. STRUCTURE OF CHETOMIN, A TOXIC METABOLITE OF CHAETOMIUM-COCHLIODES, BY N-15 AND C-13 NUCLEAR MAGNETIC-RESONANCE SPECTROSCOPY [J].
BREWER, D ;
MCINNES, AG ;
SMITH, DG ;
TAYLOR, A ;
WALTER, JA ;
LOOSLI, HR ;
KIS, ZL .
JOURNAL OF THE CHEMICAL SOCIETY-PERKIN TRANSACTIONS 1, 1978, (10) :1248-1251
[7]   3-OXO-3H-INDOLE FROM DIOXYGEN COPPER-CATALYZED OXIDATION OF INDOLE - ONE-FLASK SYNTHESIS OF 2-DIALKYLAMINO 3-OXO-3H-INDOLES [J].
CAPDEVIELLE, P ;
MAUMY, M .
TETRAHEDRON LETTERS, 1993, 34 (18) :2953-2956
[8]   Four-Component Relativistic DFT Calculations of 13C Chemical Shifts of Halogenated Natural Substances [J].
Casella, Girolamo ;
Bagno, Alessandro ;
Komorovsky, Stanislav ;
Repisky, Michal ;
Saielli, Giacomo .
CHEMISTRY-A EUROPEAN JOURNAL, 2015, 21 (51) :18834-18840
[9]   A new seco-friedelolactone acid from the bark and twigs of Itoa orientalis [J].
Chai, Xing-Yun ;
Xu, Zheng-Ren ;
Bai, Chang-Cai ;
Zhou, Fei-Ran ;
Tu, Peng-Fei .
FITOTERAPIA, 2009, 80 (07) :408-410
[10]   A POTENT NONPEPTIDE CHOLECYSTOKININ ANTAGONIST SELECTIVE FOR PERIPHERAL-TISSUES ISOLATED FROM ASPERGILLUS-ALLIACEUS [J].
CHANG, RSL ;
LOTTI, VJ ;
MONAGHAN, RL ;
BIRNBAUM, J ;
STAPLEY, EO ;
GOETZ, MA ;
ALBERSSCHONBERG, G ;
PATCHETT, AA ;
LIESCH, JM ;
HENSENS, OD ;
SPRINGER, JP .
SCIENCE, 1985, 230 (4722) :177-179