Literature DB >> 19477631

Structural and functional modules in RNA interference.

Marcin Nowotny1, Wei Yang.   

Abstract

RNA interference (RNAi) uses small RNA molecules to regulate transcriptional and post-transcriptional gene expression. In recent years, a number of structural studies provided insights into the molecular architecture and mechanism of functional modules of RNAi. Mechanisms of nucleic acid recognition and cleavage have been revealed by structural studies of proteins and their nucleic acid complexes involved in RNA biogenesis, for example, Argonaute, PIWI, RNase III, Dicer, Drosha, and DGCR8. While quite a few questions remain, an excellent structural and mechanistic overview of RNAi processes has already emerged. In this review, we examine functional modules and their assemblies in RNAi processes.

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Year:  2009        PMID: 19477631      PMCID: PMC2721689          DOI: 10.1016/j.sbi.2009.04.006

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


  48 in total

1.  RNA interference is mediated by 21- and 22-nucleotide RNAs.

Authors:  S M Elbashir; W Lendeckel; T Tuschl
Journal:  Genes Dev       Date:  2001-01-15       Impact factor: 11.361

Review 2.  The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race.

Authors:  Alexei A Aravin; Gregory J Hannon; Julius Brennecke
Journal:  Science       Date:  2007-11-02       Impact factor: 47.728

Review 3.  Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

Authors:  Witold Filipowicz; Suvendra N Bhattacharyya; Nahum Sonenberg
Journal:  Nat Rev Genet       Date:  2008-02       Impact factor: 53.242

4.  Molecular basis of double-stranded RNA-protein interactions: structure of a dsRNA-binding domain complexed with dsRNA.

Authors:  J M Ryter; S C Schultz
Journal:  EMBO J       Date:  1998-12-15       Impact factor: 11.598

5.  Heterodimer-based analysis of subunit and domain contributions to double-stranded RNA processing by Escherichia coli RNase III in vitro.

Authors:  Wenzhao Meng; Allen W Nicholson
Journal:  Biochem J       Date:  2008-02-15       Impact factor: 3.857

6.  Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex.

Authors:  Yanli Wang; Stefan Juranek; Haitao Li; Gang Sheng; Thomas Tuschl; Dinshaw J Patel
Journal:  Nature       Date:  2008-12-18       Impact factor: 49.962

7.  An epigenetic role for maternally inherited piRNAs in transposon silencing.

Authors:  Julius Brennecke; Colin D Malone; Alexei A Aravin; Ravi Sachidanandam; Alexander Stark; Gregory J Hannon
Journal:  Science       Date:  2008-11-28       Impact factor: 47.728

8.  A stepwise model for double-stranded RNA processing by ribonuclease III.

Authors:  Jianhua Gan; Gary Shaw; Joseph E Tropea; David S Waugh; Donald L Court; Xinhua Ji
Journal:  Mol Microbiol       Date:  2007-11-27       Impact factor: 3.501

9.  Structure of the guide-strand-containing argonaute silencing complex.

Authors:  Yanli Wang; Gang Sheng; Stefan Juranek; Thomas Tuschl; Dinshaw J Patel
Journal:  Nature       Date:  2008-08-27       Impact factor: 49.962

10.  Recognition of a conserved class of RNA tetraloops by Saccharomyces cerevisiae RNase III.

Authors:  G Chanfreau; M Buckle; A Jacquier
Journal:  Proc Natl Acad Sci U S A       Date:  2000-03-28       Impact factor: 11.205

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  26 in total

1.  Nucleus-localized antisense small RNAs with 5'-polyphosphate termini regulate long term transcriptional gene silencing in Entamoeba histolytica G3 strain.

Authors:  Hanbang Zhang; Hussein Alramini; Vy Tran; Upinder Singh
Journal:  J Biol Chem       Date:  2011-11-02       Impact factor: 5.157

Review 2.  Novel endoribonucleases as central players in various pathways of eukaryotic RNA metabolism.

Authors:  Rafal Tomecki; Andrzej Dziembowski
Journal:  RNA       Date:  2010-07-30       Impact factor: 4.942

3.  PRMT1 methylates the single Argonaute of Toxoplasma gondii and is important for the recruitment of Tudor nuclease for target RNA cleavage by antisense guide RNA.

Authors:  Alla Musiyenko; Tanmay Majumdar; Joel Andrews; Brian Adams; Sailen Barik
Journal:  Cell Microbiol       Date:  2012-02-28       Impact factor: 3.715

4.  Dynamic origins of differential RNA binding function in two dsRBDs from the miRNA "microprocessor" complex.

Authors:  Christopher Wostenberg; Kaycee A Quarles; Scott A Showalter
Journal:  Biochemistry       Date:  2010-11-22       Impact factor: 3.162

5.  Thermodynamic basis of selectivity in guide-target-mismatched RNA interference.

Authors:  Thomas T Joseph; Roman Osman
Journal:  Proteins       Date:  2012-02-10

Review 6.  Post-transcriptional gene silencing, transcriptional gene silencing and human immunodeficiency virus.

Authors:  Catalina Méndez; Chantelle L Ahlenstiel; Anthony D Kelleher
Journal:  World J Virol       Date:  2015-08-12

7.  Correlating SHAPE signatures with three-dimensional RNA structures.

Authors:  Eckart Bindewald; Michaela Wendeler; Michal Legiewicz; Marion K Bona; Yi Wang; Mark J Pritt; Stuart F J Le Grice; Bruce A Shapiro
Journal:  RNA       Date:  2011-07-13       Impact factor: 4.942

8.  Protection from feed-forward amplification in an amplified RNAi mechanism.

Authors:  Julia Pak; Jay Mahesh Maniar; Cecilia Cabral Mello; Andrew Fire
Journal:  Cell       Date:  2012-11-09       Impact factor: 41.582

9.  Structure of a yeast RNase III dsRBD complex with a noncanonical RNA substrate provides new insights into binding specificity of dsRBDs.

Authors:  Zhonghua Wang; Elon Hartman; Kevin Roy; Guillaume Chanfreau; Juli Feigon
Journal:  Structure       Date:  2011-07-13       Impact factor: 5.006

10.  Development of RNA Interference Trigger-Mediated Gene Silencing in Entamoeba invadens.

Authors:  Susmitha Suresh; Gretchen Ehrenkaufer; Hanbang Zhang; Upinder Singh
Journal:  Infect Immun       Date:  2016-03-24       Impact factor: 3.441

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