Cargando…

On the complexity of Engh and Huber refinement restraints: the angle τ as example

The Engh and Huber parameters for bond lengths and bond angles have been used uncontested in macromolecular structure refinement from 1991 until very recently, despite critical discussion of their ubiquitous validity by many authors. An extensive analysis of the backbone angle τ (N—C(α)—C) illustrat...

Descripción completa

Detalles Bibliográficos
Autores principales: Touw, Wouter G., Vriend, Gert
Formato: Texto
Lenguaje:English
Publicado: International Union of Crystallography 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2995724/
https://www.ncbi.nlm.nih.gov/pubmed/21123875
http://dx.doi.org/10.1107/S0907444910040928
_version_ 1782193096314847232
author Touw, Wouter G.
Vriend, Gert
author_facet Touw, Wouter G.
Vriend, Gert
author_sort Touw, Wouter G.
collection PubMed
description The Engh and Huber parameters for bond lengths and bond angles have been used uncontested in macromolecular structure refinement from 1991 until very recently, despite critical discussion of their ubiquitous validity by many authors. An extensive analysis of the backbone angle τ (N—C(α)—C) illustrates that the Engh and Huber parameters can indeed be improved and a recent study [Tronrud et al. (2010 ▶), Acta Cryst. D66, 834–842] confirms these ideas. However, the present study of τ shows that improving the Engh and Huber parameters will be considerably more complex than simply making the parameters a function of the backbone ϕ, ψ angles. Many other aspects, such as the cooperativity of hydrogen bonds, the bending of secondary-structure elements and a series of biophysical aspects of the 20 amino-acid types, will also need to be taken into account. Different sets of Engh and Huber parameters will be needed for conceptually different refinement programs.
format Text
id pubmed-2995724
institution National Center for Biotechnology Information
language English
publishDate 2010
publisher International Union of Crystallography
record_format MEDLINE/PubMed
spelling pubmed-29957242010-12-07 On the complexity of Engh and Huber refinement restraints: the angle τ as example Touw, Wouter G. Vriend, Gert Acta Crystallogr D Biol Crystallogr Research Papers The Engh and Huber parameters for bond lengths and bond angles have been used uncontested in macromolecular structure refinement from 1991 until very recently, despite critical discussion of their ubiquitous validity by many authors. An extensive analysis of the backbone angle τ (N—C(α)—C) illustrates that the Engh and Huber parameters can indeed be improved and a recent study [Tronrud et al. (2010 ▶), Acta Cryst. D66, 834–842] confirms these ideas. However, the present study of τ shows that improving the Engh and Huber parameters will be considerably more complex than simply making the parameters a function of the backbone ϕ, ψ angles. Many other aspects, such as the cooperativity of hydrogen bonds, the bending of secondary-structure elements and a series of biophysical aspects of the 20 amino-acid types, will also need to be taken into account. Different sets of Engh and Huber parameters will be needed for conceptually different refinement programs. International Union of Crystallography 2010-12-01 2010-11-16 /pmc/articles/PMC2995724/ /pubmed/21123875 http://dx.doi.org/10.1107/S0907444910040928 Text en © Touw & Vriend 2010 http://creativecommons.org/licenses/by/2.0/uk/ This is an open-access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
spellingShingle Research Papers
Touw, Wouter G.
Vriend, Gert
On the complexity of Engh and Huber refinement restraints: the angle τ as example
title On the complexity of Engh and Huber refinement restraints: the angle τ as example
title_full On the complexity of Engh and Huber refinement restraints: the angle τ as example
title_fullStr On the complexity of Engh and Huber refinement restraints: the angle τ as example
title_full_unstemmed On the complexity of Engh and Huber refinement restraints: the angle τ as example
title_short On the complexity of Engh and Huber refinement restraints: the angle τ as example
title_sort on the complexity of engh and huber refinement restraints: the angle τ as example
topic Research Papers
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2995724/
https://www.ncbi.nlm.nih.gov/pubmed/21123875
http://dx.doi.org/10.1107/S0907444910040928
work_keys_str_mv AT touwwouterg onthecomplexityofenghandhuberrefinementrestraintstheangletasexample
AT vriendgert onthecomplexityofenghandhuberrefinementrestraintstheangletasexample