Literature DB >> 11924742

Chemical shift driven geometry optimization.

Raiker Witter1, Wolfram Priess, Ulrich Sternberg.   

Abstract

A new method for refinement of 3D molecular structures by geometry optimization is presented. Prerequisites are a force field and a very fast procedure for the calculation of chemical shifts in every step of optimization. To the energy, provided by the force field (COSMOS force field), a pseudoenergy, depending on the difference between experimental and calculated chemical shifts, is added. In addition to the energy gradients, pseudoforces are computed. This requires the derivatives of the chemical shifts with respect to the coordinates. The pseudoforces are analytically derived from the integral expressions of the bond polarization theory. Single chemical shift values attributed to corresponding atoms are considered for structural correction. As a first example, this method is applied for proton position refinement of the D-mannitol X-ray structure. A crystal structure refinement with 13C chemical shift pseudoforces is carried out.

Entities:  

Mesh:

Substances:

Year:  2002        PMID: 11924742     DOI: 10.1002/jcc.10012

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


  5 in total

1.  Investigation of backbone dynamics and local geometry of bio-molecules using calculated NMR chemical shifts and anisotropies.

Authors:  Ulrich Sternberg; Raiker Witter
Journal:  J Biomol NMR       Date:  2019-10-23       Impact factor: 2.835

2.  All-atom molecular dynamics simulations using orientational constraints from anisotropic NMR samples.

Authors:  Ulrich Sternberg; Raiker Witter; Anne S Ulrich
Journal:  J Biomol NMR       Date:  2007-03-03       Impact factor: 2.835

3.  Structure determination of a pseudotripeptide zinc complex with the COSMOS-NMR force field and DFT methods.

Authors:  Raiker Witter; Lydia Seyfart; Georg Greiner; Siegmund Reissmann; Jennie Weston; Ernst Anders; Ulrich Sternberg
Journal:  J Biomol NMR       Date:  2002-12       Impact factor: 2.835

4.  Configuration determination by residual dipolar couplings: accessing the full conformational space by molecular dynamics with tensorial constraints.

Authors:  Pavleta Tzvetkova; Ulrich Sternberg; Thomas Gloge; Armando Navarro-Vázquez; Burkhard Luy
Journal:  Chem Sci       Date:  2019-07-29       Impact factor: 9.825

5.  Determination of Configuration and Conformation of a Reserpine Derivative with Seven Stereogenic Centers Using Molecular Dynamics with RDC-Derived Tensorial Constraints*.

Authors:  Emine Sager; Pavleta Tzvetkova; Alvar D Gossert; Philippe Piechon; Burkhard Luy
Journal:  Chemistry       Date:  2020-10-01       Impact factor: 5.236

  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.