Literature DB >> 31864810

Integrative Structural Biology of Protein-RNA Complexes.

Lyudmila Dimitrova-Paternoga1, Pravin Kumar Ankush Jagtap1, Po-Chia Chen1, Janosch Hennig2.   

Abstract

Ribonucleoprotein complexes (RNPs) are central to all processes in the cell. One of the prerequisites to understand how RNPs work is to determine their high-resolution structures. With the recent revolution in cryoelectron microscopy this task has become easier for large RNP machines, such as ribosomes, spliceosomes, and polymerases. However, the transient and highly dynamic nature of many RNPs makes structure determination a challenging task. Thus, an integrative structural and molecular biology approach is required, tackling three key challenges: (1) identification of cognate RNA sequences; (2) collection of structural data by conducting X-ray crystallography, NMR, electron microscopy, small-angle scattering (SAS), and other experiments; and (3) the creation of structural models that integrates all experimental restraints. Given the breadth of expertise required, this review presents an overview of available methods and successful examples with the goal to provide readers with a selection of promising options for structure determination of RNPs.
Copyright © 2019 Elsevier Ltd. All rights reserved.

Keywords:  NMR; RNA; RNA binding domain; RNA binding protein; RNA motif identification; RNA recognition; RNP; integrative structural biology; protein-RNA complexes; structural biology; structure modeling

Mesh:

Substances:

Year:  2019        PMID: 31864810     DOI: 10.1016/j.str.2019.11.017

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  6 in total

1.  RNANetMotif: Identifying sequence-structure RNA network motifs in RNA-protein binding sites.

Authors:  Hongli Ma; Han Wen; Zhiyuan Xue; Guojun Li; Zhaolei Zhang
Journal:  PLoS Comput Biol       Date:  2022-07-12       Impact factor: 4.779

2.  Methods for Collection of Extracellular Vesicles and Their Content RNA as Liquid Biopsy for Lung Cancer Detection: Application of Differential Centrifugation and Annexin A5 Coated Beads.

Authors:  Mei-Chia Wang; Guan-Yu Gong; Chih-Liang Wang; How-Wen Ko; Rong-Xuan Weng; Pi-Yueh Chang; Chiuan-Chian Chiou
Journal:  Curr Issues Mol Biol       Date:  2022-05-23       Impact factor: 2.976

3.  Site-specific covalent labeling of large RNAs with nanoparticles empowered by expanded genetic alphabet transcription.

Authors:  Yan Wang; Yaoyi Chen; Yanping Hu; Xianyang Fang
Journal:  Proc Natl Acad Sci U S A       Date:  2020-08-31       Impact factor: 11.205

Review 4.  Mechanisms of epitranscriptomic gene regulation.

Authors:  Kyung W Seo; Ralph E Kleiner
Journal:  Biopolymers       Date:  2020-10-01       Impact factor: 2.505

5.  Pseudo-RNA-Binding Domains Mediate RNA Structure Specificity in Upstream of N-Ras.

Authors:  Nele Merret Hollmann; Pravin Kumar Ankush Jagtap; Pawel Masiewicz; Tanit Guitart; Bernd Simon; Jan Provaznik; Frank Stein; Per Haberkant; Lara Jayne Sweetapple; Laura Villacorta; Dylan Mooijman; Vladimir Benes; Mikhail M Savitski; Fátima Gebauer; Janosch Hennig
Journal:  Cell Rep       Date:  2020-07-21       Impact factor: 9.423

Review 6.  Dynamic mRNP Remodeling in Response to Internal and External Stimuli.

Authors:  Kathi Zarnack; Sureshkumar Balasubramanian; Michael P Gantier; Vladislav Kunetsky; Michael Kracht; M Lienhard Schmitz; Katja Sträßer
Journal:  Biomolecules       Date:  2020-09-11
  6 in total

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