Literature DB >> 23391857

RNA pseudouridylation: new insights into an old modification.

Junhui Ge1, Yi-Tao Yu.   

Abstract

Pseudouridine is the most abundant post-transcriptionally modified nucleotide in various stable RNAs of all organisms. Pseudouridine is derived from uridine via base-specific isomerization, resulting in an extra hydrogen-bond donor that distinguishes it from other nucleotides. In eukaryotes, uridine-to-pseudouridine isomerization is catalyzed primarily by box H/ACA RNPs, ribonucleoproteins that act as pseudouridylases. When introduced into RNA, pseudouridine contributes significantly to RNA-mediated cellular processes. It was recently discovered that pseudouridylation can be induced by stress, suggesting a regulatory role for pseudouridine. It has also been reported that pseudouridine can be artificially introduced into mRNA by box H/ACA RNPs and that such introduction can mediate nonsense-to-sense codon conversion, thus demonstrating a new means of generating coding or protein diversity.
Copyright © 2013 Elsevier Ltd. All rights reserved.

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Year:  2013        PMID: 23391857      PMCID: PMC3608706          DOI: 10.1016/j.tibs.2013.01.002

Source DB:  PubMed          Journal:  Trends Biochem Sci        ISSN: 0968-0004            Impact factor:   13.807


  84 in total

1.  The Cbf5-Nop10 complex is a molecular bracket that organizes box H/ACA RNPs.

Authors:  Tomoko Hamma; Steve L Reichow; Gabriele Varani; Adrian R Ferré-D'Amaré
Journal:  Nat Struct Mol Biol       Date:  2005-11-15       Impact factor: 15.369

2.  Crystal structure of a Cbf5-Nop10-Gar1 complex and implications in RNA-guided pseudouridylation and dyskeratosis congenita.

Authors:  Rumana Rashid; Bo Liang; Daniel L Baker; Osama A Youssef; Yang He; Kathleen Phipps; Rebecca M Terns; Michael P Terns; Hong Li
Journal:  Mol Cell       Date:  2006-01-20       Impact factor: 17.970

3.  Crystal structure of an H/ACA box ribonucleoprotein particle.

Authors:  Ling Li; Keqiong Ye
Journal:  Nature       Date:  2006-08-30       Impact factor: 49.962

4.  A computational screen for mammalian pseudouridylation guide H/ACA RNAs.

Authors:  Peter Schattner; Sergio Barberan-Soler; Todd M Lowe
Journal:  RNA       Date:  2006-01       Impact factor: 4.942

5.  Pseudouridylation of yeast U2 snRNA is catalyzed by either an RNA-guided or RNA-independent mechanism.

Authors:  Xiaoju Ma; Chunxing Yang; Andrei Alexandrov; Elizabeth J Grayhack; Isabelle Behm-Ansmant; Yi-Tao Yu
Journal:  EMBO J       Date:  2005-06-16       Impact factor: 11.598

6.  rRNA modifications in an intersubunit bridge of the ribosome strongly affect both ribosome biogenesis and activity.

Authors:  Xue-hai Liang; Qing Liu; Maurille J Fournier
Journal:  Mol Cell       Date:  2007-12-28       Impact factor: 17.970

7.  Solution structure of an rRNA substrate bound to the pseudouridylation pocket of a box H/ACA snoRNA.

Authors:  Hong Jin; J Patrick Loria; Peter B Moore
Journal:  Mol Cell       Date:  2007-04-27       Impact factor: 17.970

8.  Increased urinary level of oxidized nucleosides in patients with mild-to-moderate Alzheimer's disease.

Authors:  Sang Hee Lee; Inseong Kim; Bong Chul Chung
Journal:  Clin Biochem       Date:  2007-01-05       Impact factor: 3.281

9.  H/ACA small nucleolar RNA pseudouridylation pockets bind substrate RNA to form three-way junctions that position the target U for modification.

Authors:  Haihong Wu; Juli Feigon
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-05       Impact factor: 11.205

10.  Crystal structure determination and site-directed mutagenesis of the Pyrococcus abyssi aCBF5-aNOP10 complex reveal crucial roles of the C-terminal domains of both proteins in H/ACA sRNP activity.

Authors:  Xavier Manival; Christophe Charron; Jean-Baptiste Fourmann; François Godard; Bruno Charpentier; Christiane Branlant
Journal:  Nucleic Acids Res       Date:  2006-02-02       Impact factor: 16.971

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  94 in total

1.  Pseudouridine in a new era of RNA modifications.

Authors:  Boxuan Simen Zhao; Chuan He
Journal:  Cell Res       Date:  2014-11-04       Impact factor: 25.617

2.  Transcriptome-Wide Identification of Pseudouridine Modifications Using Pseudo-seq.

Authors:  Thomas M Carlile; Maria F Rojas-Duran; Wendy V Gilbert
Journal:  Curr Protoc Mol Biol       Date:  2015-10-01

3.  XG-PseU: an eXtreme Gradient Boosting based method for identifying pseudouridine sites.

Authors:  Kewei Liu; Wei Chen; Hao Lin
Journal:  Mol Genet Genomics       Date:  2019-08-07       Impact factor: 3.291

4.  Two for the price of one: RNA modification enzymes as chaperones.

Authors:  Sandra L Wolin
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-30       Impact factor: 11.205

Review 5.  The Epitranscriptome in Translation Regulation.

Authors:  Eyal Peer; Sharon Moshitch-Moshkovitz; Gideon Rechavi; Dan Dominissini
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-08-01       Impact factor: 10.005

6.  Efficient RNA pseudouridylation by eukaryotic H/ACA ribonucleoproteins requires high affinity binding and correct positioning of guide RNA.

Authors:  Evan A Caton; Erin K Kelly; Rajashekhar Kamalampeta; Ute Kothe
Journal:  Nucleic Acids Res       Date:  2018-01-25       Impact factor: 16.971

7.  Glucose-Induced Trophic Shift in an Endosymbiont Dinoflagellate with Physiological and Molecular Consequences.

Authors:  Tingting Xiang; Robert E Jinkerson; Sophie Clowez; Cawa Tran; Cory J Krediet; Masayuki Onishi; Phillip A Cleves; John R Pringle; Arthur R Grossman
Journal:  Plant Physiol       Date:  2017-12-07       Impact factor: 8.340

8.  Evolving insights into RNA modifications and their functional diversity in the brain.

Authors:  Sarah Nainar; Paul R Marshall; Christina R Tyler; Robert C Spitale; Timothy W Bredy
Journal:  Nat Neurosci       Date:  2016-09-27       Impact factor: 24.884

Review 9.  How RNA-Binding Proteins Interact with RNA: Molecules and Mechanisms.

Authors:  Meredith Corley; Margaret C Burns; Gene W Yeo
Journal:  Mol Cell       Date:  2020-04-02       Impact factor: 17.970

10.  Pseudouridine in mRNA: Incorporation, Detection, and Recoding.

Authors:  Guowei Wu; Chao Huang; Yi-Tao Yu
Journal:  Methods Enzymol       Date:  2015-04-27       Impact factor: 1.600

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