Literature DB >> 27102900

Local analysis of strains and rotations for macromolecular electron microscopy maps.

C O S Sorzano1, A Martín-Ramos2, F Prieto2, R Melero3, J Martín-Benito3, S Jonic4, J Navas-Calvente3, J Vargas3, J Otón3, V Abrishami3, J M de la Rosa-Trevín3, J Gómez-Blanco3, J L Vilas3, R Marabini5, J M Carazo3.   

Abstract

Macromolecular complexes perform their physiological functions by local rearrangements of their constituents and biochemically interacting with their reaction partners. These rearrangements may involve local rotations and the induction of local strains causing different mechanical efforts and stretches at the different areas of the protein. The analysis of these local deformations may reveal important insight into the way proteins perform their tasks. In this paper we introduce a method to perform this kind of local analysis using Electron Microscopy volumes in a fully objective and automatic manner. For doing so, we exploit the continuous nature of the result of an elastic image registration using B-splines as its basis functions. We show that the results obtained by the new automatic method are consistent with previous observations on these macromolecules.
Copyright © 2016 Elsevier Inc. All rights reserved.

Keywords:  Elastic registration; Local deformation analysis; Local rotations; Local strains; Single particle analysis

Mesh:

Substances:

Year:  2016        PMID: 27102900     DOI: 10.1016/j.jsb.2016.04.001

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  5 in total

Review 1.  Emerging Themes in CryoEM─Single Particle Analysis Image Processing.

Authors:  Jose Luis Vilas; Jose Maria Carazo; Carlos Oscar S Sorzano
Journal:  Chem Rev       Date:  2022-07-04       Impact factor: 72.087

2.  Continuous flexibility analysis of SARS-CoV-2 spike prefusion structures.

Authors:  Roberto Melero; Carlos Oscar S Sorzano; Brent Foster; José-Luis Vilas; Marta Martínez; Roberto Marabini; Erney Ramírez-Aportela; Ruben Sanchez-Garcia; David Herreros; Laura Del Caño; Patricia Losana; Yunior C Fonseca-Reyna; Pablo Conesa; Daniel Wrapp; Pablo Chacon; Jason S McLellan; Hemant D Tagare; Jose-Maria Carazo
Journal:  IUCrJ       Date:  2020-09-29       Impact factor: 4.769

3.  An atypical BRCT-BRCT interaction with the XRCC1 scaffold protein compacts human DNA Ligase IIIα within a flexible DNA repair complex.

Authors:  Michal Hammel; Ishtiaque Rashid; Aleksandr Sverzhinsky; Yasin Pourfarjam; Miaw-Sheue Tsai; Tom Ellenberger; John M Pascal; In-Kwon Kim; John A Tainer; Alan E Tomkinson
Journal:  Nucleic Acids Res       Date:  2021-01-11       Impact factor: 16.971

4.  Approximating deformation fields for the analysis of continuous heterogeneity of biological macromolecules by 3D Zernike polynomials.

Authors:  David Herreros; Roy R Lederman; James Krieger; Amaya Jiménez-Moreno; Marta Martínez; David Myška; David Strelak; Jiri Filipovic; Ivet Bahar; Jose Maria Carazo; Carlos Oscar S Sanchez
Journal:  IUCrJ       Date:  2021-10-14       Impact factor: 4.769

5.  Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures.

Authors:  Roberto Melero; Carlos Oscar S Sorzano; Brent Foster; José-Luis Vilas; Marta Martínez; Roberto Marabini; Erney Ramírez-Aportela; Ruben Sanchez-Garcia; David Herreros; Laura Del Caño; Patricia Losana; Yunior C Fonseca-Reyna; Pablo Conesa; Daniel Wrapp; Pablo Chacon; Jason S McLellan; Hemant D Tagare; Jose-Maria Carazo
Journal:  bioRxiv       Date:  2020-07-08
  5 in total

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