II 型内含子识别外显子的结构基础。
Structural basis for exon recognition by a group II intron.
作者信息
Toor Navtej, Rajashankar Kanagalaghatta, Keating Kevin S, Pyle Anna Marie
机构信息
Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, Connecticut 06520, USA.
出版信息
Nat Struct Mol Biol. 2008 Nov;15(11):1221-2. doi: 10.1038/nsmb.1509. Epub 2008 Oct 26.
Abstract
Free group II introns are infectious retroelements that can bind and insert themselves into RNA and DNA molecules via reverse splicing. Here we report the 3.4-A crystal structure of a complex between an oligonucleotide target substrate and a group IIC intron, as well as the refined free intron structure. The structure of the complex reveals the conformation of motifs involved in exon recognition by group II introns.
摘要
游离的II组内含子是可感染的逆转录元件，能够通过反向剪接结合并插入到RNA和DNA分子中。在此，我们报道了寡核苷酸靶底物与IIC组内含子之间复合物的3.4埃晶体结构，以及精制后的游离内含子结构。该复合物的结构揭示了II组内含子识别外显子所涉及的基序构象。
相似文献
1
Structural basis for exon recognition by a group II intron.II 型内含子识别外显子的结构基础。
Nat Struct Mol Biol. 2008 Nov;15(11):1221-2. doi: 10.1038/nsmb.1509. Epub 2008 Oct 26.
2
A Highly Proliferative Group IIC Intron from Geobacillus stearothermophilus Reveals New Features of Group II Intron Mobility and Splicing.嗜热脂肪地芽孢杆菌高度增殖的 IIIC 内含子揭示了 II 型内含子移动和剪接的新特征。
J Mol Biol. 2018 Aug 17;430(17):2760-2783. doi: 10.1016/j.jmb.2018.06.019. Epub 2018 Jun 15.
3
Crystal structure of a self-splicing group I intron with both exons.具有两个外显子的自我剪接I组内含子的晶体结构。
Nature. 2004 Jul 1;430(6995):45-50. doi: 10.1038/nature02642. Epub 2004 Jun 2.
4
Self-splicing of a group IIC intron: 5' exon recognition and alternative 5' splicing events implicate the stem-loop motif of a transcriptional terminator.IIC 组内含子的自我剪接：5' 外显子识别和替代性 5' 剪接事件涉及转录终止子的茎环基序。
Nucleic Acids Res. 2006;34(22):6461-71. doi: 10.1093/nar/gkl820. Epub 2006 Nov 27.
5
Crystal structure of a group I intron splicing intermediate.I 类内含子剪接中间体的晶体结构
RNA. 2004 Dec;10(12):1867-87. doi: 10.1261/rna.7140504.
6
Bacterial group II introns generate genetic diversity by circularization and trans-splicing from a population of intron-invaded mRNAs.细菌的第二类内含子通过环化和转剪接从内含子入侵的 mRNA 群体中产生遗传多样性。
PLoS Genet. 2018 Nov 21;14(11):e1007792. doi: 10.1371/journal.pgen.1007792. eCollection 2018 Nov.
7
8
Multiple exon-binding sites in class II self-splicing introns.II类自我剪接内含子中的多个外显子结合位点。
Cell. 1987 Jul 3;50(1):17-29. doi: 10.1016/0092-8674(87)90658-1.
9
DNA target site requirements for homing in vivo of a bacterial group II intron encoding a protein lacking the DNA endonuclease domain.编码缺乏DNA内切核酸酶结构域的蛋白质的细菌II组内含子在体内归巢的DNA靶位点要求。
J Mol Biol. 2003 Feb 14;326(2):413-23. doi: 10.1016/s0022-2836(02)01380-3.
10
Exon sequence requirements for excision in vivo of the bacterial group II intron RmInt1.细菌类群 II 内含子 RmInt1 体内切除的外显子序列要求。
BMC Mol Biol. 2011 May 23;12:24. doi: 10.1186/1471-2199-12-24.
引用本文的文献
1
In crystallo observation of active site dynamics and transient metal ion binding within DNA polymerases.在晶体中对DNA聚合酶活性位点动力学和瞬态金属离子结合的观察。
Struct Dyn. 2023 Jun 15;10(3):034702. doi: 10.1063/4.0000187. eCollection 2023 May.
2
General Strategies for RNA X-ray Crystallography.RNA 晶体 X 射线衍射的一般策略。
Molecules. 2023 Feb 23;28(5):2111. doi: 10.3390/molecules28052111.
3
Exon and protein positioning in a pre-catalytic group II intron RNP primed for splicing.前催化型 II 类内含子 RNP 中exon 和蛋白质的定位，该 RNP 已准备好进行剪接。
Nucleic Acids Res. 2020 Nov 4;48(19):11185-11198. doi: 10.1093/nar/gkaa773.
4
Unraveling the role of the enigmatic MatK maturase in chloroplast group IIA intron excision.解析神秘的MatK成熟酶在叶绿体IIA类内含子剪接中的作用。
Plant Direct. 2020 Mar 13;4(3):e00208. doi: 10.1002/pld3.208. eCollection 2020 Mar.
5
Metal ions and sugar puckering balance single-molecule kinetic heterogeneity in RNA and DNA tertiary contacts.金属离子和糖环构象平衡 RNA 和 DNA 三级结构中分子动力学的不均一性。
Nat Commun. 2020 Jan 8;11(1):104. doi: 10.1038/s41467-019-13683-4.
6
Branch site bulge conformations in domain 6 determine functional sugar puckers in group II intron splicing.结构域 6 分支位点凸起构象决定 II 型内含子剪接中功能性糖环的构象。
Nucleic Acids Res. 2019 Dec 2;47(21):11430-11440. doi: 10.1093/nar/gkz965.
7
Advances that facilitate the study of large RNA structure and dynamics by nuclear magnetic resonance spectroscopy.通过核磁共振波谱学促进大 RNA 结构和动力学研究的进展。
Wiley Interdiscip Rev RNA. 2019 Sep;10(5):e1541. doi: 10.1002/wrna.1541. Epub 2019 Apr 25.
8
Structural accommodations accompanying splicing of a group II intron RNP.伴随 II 类内含子 RNP 剪接的结构适应。
Nucleic Acids Res. 2018 Sep 19;46(16):8542-8556. doi: 10.1093/nar/gky416.
9
Structural Insights into the Mechanism of Group II Intron Splicing.II类内含子剪接机制的结构见解
Trends Biochem Sci. 2017 Jun;42(6):470-482. doi: 10.1016/j.tibs.2017.03.007. Epub 2017 Apr 21.
10
Identification of a GUAAY Pentaloop Sequence Involved in a Novel RNA Loop-Helix Interaction.鉴定参与新型RNA环-螺旋相互作用的GUAAY五碱基环序列。
J Mol Biol. 2016 Dec 4;428(24 Pt B):4882-4889. doi: 10.1016/j.jmb.2016.10.015. Epub 2016 Oct 19.
本文引用的文献
1
Crystal structure of a self-spliced group II intron.一种自我剪接的II类内含子的晶体结构。
Science. 2008 Apr 4;320(5872):77-82. doi: 10.1126/science.1153803.
2
A second divalent metal ion in the group II intron reaction center.II组内含子反应中心中的第二个二价金属离子。
Chem Biol. 2007 Jun;14(6):607-12. doi: 10.1016/j.chembiol.2007.05.008.
3
Insertion of group II intron retroelements after intrinsic transcriptional terminators.II类内含子逆转录元件在固有转录终止子之后的插入。
Proc Natl Acad Sci U S A. 2007 Apr 17;104(16):6620-5. doi: 10.1073/pnas.0700561104. Epub 2007 Apr 9.
4
Introns and the origin of nucleus-cytosol compartmentalization.内含子与核质区室化的起源
Nature. 2006 Mar 2;440(7080):41-5. doi: 10.1038/nature04531.
5
Retroids in archaea: phylogeny and lateral origins.古菌中的逆转录元件：系统发育与侧向起源
Mol Biol Evol. 2003 Jul;20(7):1134-42. doi: 10.1093/molbev/msg135. Epub 2003 May 30.
6
Coevolution of group II intron RNA structures with their intron-encoded reverse transcriptases.II类内含子RNA结构与其内含子编码的逆转录酶的共同进化。
RNA. 2001 Aug;7(8):1142-52. doi: 10.1017/s1355838201010251.
7
A three-dimensional perspective on exon binding by a group II self-splicing intron.对II类自剪接内含子外显子结合的三维视角。
EMBO J. 2000 Sep 15;19(18):5007-18. doi: 10.1093/emboj/19.18.5007.
8
The two steps of group II intron self-splicing are mechanistically distinguishable.II类内含子自我剪接的两个步骤在机制上是可区分的。
RNA. 1998 Aug;4(8):890-900. doi: 10.1017/s1355838298971643.
Zotero 插件