Literature DB >> 28833293

Evaluating electronic structure methods for accurate calculation of 19 F chemical shifts in fluorinated amino acids.

Jayangika N Dahanayake1, Chandana Kasireddy1, Jonathan M Ellis1, Derek Hildebrandt1, Olivia A Hull1, Joseph P Karnes1, Dylan Morlan1, Katie R Mitchell-Koch1.   

Abstract

The ability of electronic structure methods (11 density functionals, HF, and MP2 calculations; two basis sets and two solvation models) to accurately calculate the 19 F chemical shifts of 31 structures of fluorinated amino acids and analogues with known experimental 19 F NMR spectra has been evaluated. For this task, BHandHLYP, ωB97X, and Hartree-Fock with scaling factors (provided within) are most accurate. Additionally, the accuracy of methods to calculate relative changes in fluorine shielding across 23 sets of structural variants, such as zwitterionic amino acids versus side chains only, was also determined. This latter criterion may be a better indicator of reliable methods for the ultimate goal of assigning and interpreting chemical shifts of fluorinated amino acids in proteins. It was found that MP2 and M062X calculations most accurately assess changes in shielding among analogues. These results serve as a guide for computational developments to calculate 19 F chemical shifts in biomolecular environments.
© 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Entities:  

Keywords:  DFT; chemical shifts; density functional; fluorinated amino acids; fluorine NMR; fluorolabeling; scaling factors; shielding

Mesh:

Substances:

Year:  2017        PMID: 28833293      PMCID: PMC5638705          DOI: 10.1002/jcc.24919

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  44 in total

1.  DFT-GIAO calculations of 19F NMR chemical shifts for perfluoro compounds.

Authors:  Haruhiko Fukaya; Taizo Ono
Journal:  J Comput Chem       Date:  2004-01-15       Impact factor: 3.376

2.  Quantitative prediction of gas-phase 19F nuclear magnetic shielding constants.

Authors:  Michael E Harding; Michael Lenhart; Alexander A Auer; Jürgen Gauss
Journal:  J Chem Phys       Date:  2008-06-28       Impact factor: 3.488

3.  Comparison of some representative density functional theory and wave function theory methods for the studies of amino acids.

Authors:  Wenbo Yu; Lei Liang; Zijing Lin; Sanliang Ling; Maciej Haranczyk; Maciej Gutowski
Journal:  J Comput Chem       Date:  2009-03       Impact factor: 3.376

4.  Validation of electronic structure methods for isomerization reactions of large organic molecules.

Authors:  Sijie Luo; Yan Zhao; Donald G Truhlar
Journal:  Phys Chem Chem Phys       Date:  2011-07-04       Impact factor: 3.676

5.  Prediction of (19)F NMR Chemical Shifts in Labeled Proteins: Computational Protocol and Case Study.

Authors:  William C Isley; Andrew K Urick; William C K Pomerantz; Christopher J Cramer
Journal:  Mol Pharm       Date:  2016-06-02       Impact factor: 4.939

6.  19F NMR measurements of the rotational mobility of proteins in vivo.

Authors:  S P Williams; P M Haggie; K M Brindle
Journal:  Biophys J       Date:  1997-01       Impact factor: 4.033

7.  Protein (19)F NMR in Escherichia coli.

Authors:  Conggang Li; Gui-Fang Wang; Yaqiang Wang; Rachel Creager-Allen; Evan A Lutz; Heidi Scronce; Kristin M Slade; Rebecca A S Ruf; Ryan A Mehl; Gary J Pielak
Journal:  J Am Chem Soc       Date:  2010-01-13       Impact factor: 15.419

8.  Hydrogen bonding interactions of covalently bonded fluorine atoms: from crystallographic data to a new angular function in the GRID force field.

Authors:  Emanuele Carosati; Simone Sciabola; Gabriele Cruciani
Journal:  J Med Chem       Date:  2004-10-07       Impact factor: 7.446

9.  Observation of sequential steps in the folding of intestinal fatty acid binding protein using a slow folding mutant and 19F NMR.

Authors:  Hua Li; Carl Frieden
Journal:  Proc Natl Acad Sci U S A       Date:  2007-07-05       Impact factor: 11.205

10.  The Biophysical Probes 2-fluorohistidine and 4-fluorohistidine: Spectroscopic Signatures and Molecular Properties.

Authors:  Chandana Kasireddy; Jonathan M Ellis; James G Bann; Katie R Mitchell-Koch
Journal:  Sci Rep       Date:  2017-02-15       Impact factor: 4.379

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  1 in total

1.  Predicting 19 F NMR Chemical Shifts: A Combined Computational and Experimental Study of a Trypanosomal Oxidoreductase-Inhibitor Complex.

Authors:  Johannes C B Dietschreit; Annika Wagner; T Anh Le; Philipp Klein; Hermann Schindelin; Till Opatz; Bernd Engels; Ute A Hellmich; Christian Ochsenfeld
Journal:  Angew Chem Int Ed Engl       Date:  2020-05-25       Impact factor: 15.336

  1 in total

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