Literature DB >> 24530854

The spliceosome: disorder and dynamics defined.

Weijun Chen1, Melissa J Moore2.   

Abstract

Among the many macromolecular machines involved in eukaryotic gene expression, the spliceosome remains one of the most challenging for structural biologists. Defining features of this highly complex apparatus are its excessive number of individual parts, many of which have been evolutionarily selected for regions of structural disorder, and the remarkable compositional and conformation dynamics it must undertake to complete each round of splicing. Here we review recent advances in our understanding of spliceosome structural dynamics stemming from bioinformatics, deep sequencing, high throughput methods for determining protein-protein, protein-RNA and RNA-RNA interaction dynamics, single molecule microscopy and more traditional structural analyses. Together, these tools are rapidly changing our structural appreciation of this remarkably dynamic machine.
Copyright © 2014 Elsevier Ltd. All rights reserved.

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Year:  2014        PMID: 24530854      PMCID: PMC3987960          DOI: 10.1016/j.sbi.2014.01.009

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  58 in total

Review 1.  Pre-mRNA splicing: awash in a sea of proteins.

Authors:  Melissa S Jurica; Melissa J Moore
Journal:  Mol Cell       Date:  2003-07       Impact factor: 17.970

2.  Opposing classes of prp8 alleles modulate the transition between the catalytic steps of pre-mRNA splicing.

Authors:  Li Liu; Charles C Query; Maria M Konarska
Journal:  Nat Struct Mol Biol       Date:  2007-05-07       Impact factor: 15.369

Review 3.  Structural and functional constraints in the evolution of protein families.

Authors:  Catherine L Worth; Sungsam Gong; Tom L Blundell
Journal:  Nat Rev Mol Cell Biol       Date:  2009-09-16       Impact factor: 94.444

4.  U1 snRNP inhibits pre-mRNA polyadenylation through a direct interaction between U1 70K and poly(A) polymerase.

Authors:  S I Gunderson; M Polycarpou-Schwarz; I W Mattaj
Journal:  Mol Cell       Date:  1998-01       Impact factor: 17.970

Review 5.  Prp8 protein: at the heart of the spliceosome.

Authors:  Richard J Grainger; Jean D Beggs
Journal:  RNA       Date:  2005-05       Impact factor: 4.942

6.  Major conformational change in the complex SF3b upon integration into the spliceosomal U11/U12 di-snRNP as revealed by electron cryomicroscopy.

Authors:  Monika M Golas; Bjoern Sander; Cindy L Will; Reinhard Lührmann; Holger Stark
Journal:  Mol Cell       Date:  2005-03-18       Impact factor: 17.970

7.  U1 snRNP determines mRNA length and regulates isoform expression.

Authors:  Michael G Berg; Larry N Singh; Ihab Younis; Qiang Liu; Anna Maria Pinto; Daisuke Kaida; Zhenxi Zhang; Sungchan Cho; Scott Sherrill-Mix; Lili Wan; Gideon Dreyfuss
Journal:  Cell       Date:  2012-07-06       Impact factor: 41.582

8.  Single-molecule analysis of protein-free U2-U6 snRNAs.

Authors:  Zhuojun Guo; Krishanthi S Karunatilaka; David Rueda
Journal:  Nat Struct Mol Biol       Date:  2009-11-01       Impact factor: 15.369

9.  Malleable ribonucleoprotein machine: protein intrinsic disorder in the Saccharomyces cerevisiae spliceosome.

Authors:  Maria de Lourdes Coelho Ribeiro; Julio Espinosa; Sameen Islam; Osvaldo Martinez; Jayesh Jamnadas Thanki; Stephanie Mazariegos; Tam Nguyen; Maya Larina; Bin Xue; Vladimir N Uversky
Journal:  PeerJ       Date:  2013-02-12       Impact factor: 2.984

Review 10.  The significant other: splicing by the minor spliceosome.

Authors:  Janne J Turunen; Elina H Niemelä; Bhupendra Verma; Mikko J Frilander
Journal:  Wiley Interdiscip Rev RNA       Date:  2012-10-16       Impact factor: 9.957

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  39 in total

1.  Molecular architecture and dynamics of ASH1 mRNA recognition by its mRNA-transport complex.

Authors:  Franziska Theresia Edelmann; Andreas Schlundt; Roland Gerhard Heym; Andreas Jenner; Annika Niedner-Boblenz; Muhammad Ibrahim Syed; Jean-Christophe Paillart; Ralf Stehle; Robert Janowski; Michael Sattler; Ralf-Peter Jansen; Dierk Niessing
Journal:  Nat Struct Mol Biol       Date:  2017-01-16       Impact factor: 15.369

2.  An Rtf2 Domain-Containing Protein Influences Pre-mRNA Splicing and Is Essential for Embryonic Development in Arabidopsis thaliana.

Authors:  Taku Sasaki; Tatsuo Kanno; Shih-Chieh Liang; Pao-Yang Chen; Wen-Wei Liao; Wen-Dar Lin; Antonius J M Matzke; Marjori Matzke
Journal:  Genetics       Date:  2015-03-27       Impact factor: 4.562

Review 3.  Guard the guardian: A CRL4 ligase stands watch over histone production.

Authors:  Fabienne Lampert; Mia M L Brodersen; Matthias Peter
Journal:  Nucleus       Date:  2017-01-10       Impact factor: 4.197

4.  Structural and mechanistic insights into human splicing factor SF3b complex derived using an integrated approach guided by the cryo-EM density maps.

Authors:  Ramachandran Rakesh; Agnel Praveen Joseph; Ramachandra M Bhaskara; Narayanaswamy Srinivasan
Journal:  RNA Biol       Date:  2016-08-11       Impact factor: 4.652

Review 5.  Life under the Microscope: Single-Molecule Fluorescence Highlights the RNA World.

Authors:  Sujay Ray; Julia R Widom; Nils G Walter
Journal:  Chem Rev       Date:  2018-01-24       Impact factor: 60.622

6.  The molecular basis of LST-1 self-renewal activity and its control of stem cell pool size.

Authors:  Kimberly A Haupt; Amy L Enright; Ahlan S Ferdous; Aaron M Kershner; Heaji Shin; Marvin Wickens; Judith Kimble
Journal:  Development       Date:  2019-10-17       Impact factor: 6.868

7.  Analysis of spliceosome dynamics by maximum likelihood fitting of dwell time distributions.

Authors:  Harpreet Kaur; Fatemehsadat Jamalidinan; Samson G F Condon; Alessandro Senes; Aaron A Hoskins
Journal:  Methods       Date:  2018-11-23       Impact factor: 3.608

8.  Determination of the conformational ensemble of the TAR RNA by X-ray scattering interferometry.

Authors:  Xuesong Shi; Peter Walker; Pehr B Harbury; Daniel Herschlag
Journal:  Nucleic Acids Res       Date:  2017-05-05       Impact factor: 16.971

9.  Structural Roles of Noncoding RNAs in the Heart of Enzymatic Complexes.

Authors:  William J Martin; Nicholas J Reiter
Journal:  Biochemistry       Date:  2016-12-29       Impact factor: 3.162

Review 10.  When SUMO met splicing.

Authors:  Berta Pozzi; Pablo Mammi; Laureano Bragado; Luciana E Giono; Anabella Srebrow
Journal:  RNA Biol       Date:  2018-05-09       Impact factor: 4.652

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