Structural Insights into the Mechanism of Group II Intron Splicing

Zhao, Chunqing; Pyle, Anna Marie

doi:10.1016/j.tibs.2017.03.007

Cited by 53 publications

(57 citation statements)

References 71 publications

(182 reference statements)

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“…Phosphorothioate substitution studies showed that U6 catalyzes both steps of pre-mRNA splicing by positioning two Mg 2+ ions that stabilize the leaving groups during each reaction (Fica et al 2013). The active site RNA conformations of the spliceosome and group II introns are highly similar (Zhao and Pyle 2017), but the former requires proteins for its formation and stabilization as described below.…”

Section: Resmentioning

confidence: 99%

Structural Insights into Nuclear pre-mRNA Splicing in Higher Eukaryotes

Kastner

Will

Stark

et al. 2019

Cold Spring Harb Perspect Biol

168

164

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The spliceosome is a highly complex, dynamic ribonucleoprotein molecular machine that undergoes numerous structural and compositional rearrangements that lead to the formation of its active site. Recent advances in cyroelectron microscopy (cryo-EM) have provided a plethora of near-atomic structural information about the inner workings of the spliceosome. Aided by previous biochemical, structural, and functional studies, cryo-EM has confirmed or provided a structural basis for most of the prevailing models of spliceosome function, but at the same time allowed novel insights into splicing catalysis and the intriguing dynamics of the spliceosome. The mechanism of pre-mRNA splicing is highly conserved between humans and yeast, but the compositional dynamics and ribonucleoprotein (RNP) remodeling of the human spliceosome are more complex. Here, we summarize recent advances in our understanding of the molecular architecture of the human spliceosome, highlighting differences between the human and yeast splicing machineries. 7 Insights into the function of PPIases and IBC proteins during splicing 8 Analysis of the conformational dynamics of hB act 9 Structure of human C and C * complexes 10 Insights into the mechanism of action of spliceosomal helicases 11 Large-scale movements of spliceosomal components 12 Future directions References

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Section: Resmentioning

confidence: 99%

Structural Insights into Nuclear pre-mRNA Splicing in Higher Eukaryotes

Kastner

Will

Stark

et al. 2019

Cold Spring Harb Perspect Biol

168

164

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“…The group II intron RNA secondary structure consists of six double-helical domains, DI to DVI, with DI, DV and DVI playing essential roles in splicing (Figure 1B) [1, 3–5]. DI is the largest domain and forms a structural scaffold for the molecule and also contains the exon recognition elements (exon binding sites, EBSs) [2, 6–8]. DV is the most highly conserved domain and contains the so-called “catalytic triad” (usually AGC, but often CGC), which binds catalytically important Mg 2+ ions and, in combination with parts of DI, forms the active site.…”

Section: Group II Introns Are Ribozymes and Mobile Genetic Elementsmentioning

confidence: 99%

“…IEPs are multifunctional proteins containing conserved RT domains as well as a domain X associated with RNA binding and maturase activity involved in splicing. There are also DNA binding and DNA endonuclease domains involved in mobility (Figure 1) [1–4, 8]. …”

Section: Group II Introns Are Ribozymes and Mobile Genetic Elementsmentioning

confidence: 99%

Mobile Group II Introns as Ancestral Eukaryotic Elements

Новикова

Belfort

2017

Trends in Genetics

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The duality of group II introns, capable of carrying out both self-splicing and retromobility reactions, is hypothesized to have played a profound role in the evolution of eukaryotes. These introns likely provided the framework for the emergence of eukaryotic retroelements, spliceosomal introns and other key components of the spliceosome. Group II introns are found in all three domains of life and are therefore considered to be exceptionally successful mobile genetic elements. Initially identified in organellar genomes, group II introns are found in bacteria, chloroplasts and mitochondria of plants and fungi, but not in nuclear genomes. Although there is no doubt that prokaryotic and organellar group II introns are evolutionary related, there are remarkable differences in survival strategies between them. Furthermore, an evolutionary relationship of group II introns to eukaryotic retroelements, including telomeres, and spliceosomes is unmistakable.

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“…Group I introns, widely present in mRNA, rRNA and tRNA of variety of organisms including algae, fungi, lower eukaryotes and few bacteria [38][39][40][41][42]. Similarly, group II introns are large autocatalytic ribozymes widely present in the mitochondria, chloroplast, plants, fungi, yeast and many bacteria, play major role in genome evolution [43][44][45][46]. The tRNA introns widely present in all domains of life are exceptionally different as enzymes are involved in the removal of intron and in the joining of the two halves [47][48][49].…”

Section: Intronic Regionsmentioning

confidence: 99%

Modulation of Gene Expression by Gene Architecture and Promoter Structure

Kumar¹,

Bansal²

2018

Bioinformatics in the Era of Post Genomics and Big Data

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Regulation of gene expression is achieved by the presence of cis regulatory elements; these signatures are interspersed in the noncoding region and also situated in the coding region of the genome. These elements orchestrate the gene expression process by regulating the different steps involved in the flow of genetic information. Transcription (DNA to RNA) and translation (RNA to Protein) are controlled at different levels by different regulatory elements present in the genome. Current chapter describes the structural and functional elements present in the coding and noncoding region of the genome. Further we discuss role of regulatory elements in regulation of gene expression in prokaryotes and eukaryotes. Finally, we also discuss DNA structural properties of regulatory regions and their role in gene expression. Identification and characterization of cis regulatory elements would be useful to engineer the regulation of gene expression.

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Structural Insights into the Mechanism of Group II Intron Splicing

Cited by 53 publications

References 71 publications

Structural Insights into Nuclear pre-mRNA Splicing in Higher Eukaryotes

Structural Insights into Nuclear pre-mRNA Splicing in Higher Eukaryotes

Mobile Group II Introns as Ancestral Eukaryotic Elements

Modulation of Gene Expression by Gene Architecture and Promoter Structure

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