细菌 LSm 蛋白 Hfq 的结构和 RNA 结合特性。
Structure and RNA-binding properties of the bacterial LSm protein Hfq.
机构信息
Biozentrum, University of Basel, Basel, Switzerland.
出版信息
RNA Biol. 2013 Apr;10(4):610-8. doi: 10.4161/rna.24201. Epub 2013 Mar 27.
Abstract
Over the past years, small non-coding RNAs (sRNAs) emerged as important modulators of gene expression in bacteria. Guided by partial sequence complementarity, these sRNAs interact with target mRNAs and eventually affect transcript stability and translation. The physiological function of sRNAs depends on the protein Hfq, which binds sRNAs in the cell and promotes the interaction with their mRNA targets. This important physiological function of Hfq as a central hub of sRNA-mediated regulation made it one of the most intensely studied proteins in bacteria. Recently, a new model for sRNA binding by Hfq has been proposed that involves the direct recognition of the sRNA 3' end and interactions of the sRNA body with the lateral RNA-binding surface of Hfq. This review summarizes the current understanding of the RNA binding properties of Hfq and its (s)RNA complexes. Moreover, the implications of the new binding model for sRNA-mediated regulation are discussed.
摘要
在过去的几年中，小非编码 RNA（sRNA）已成为细菌中基因表达的重要调控因子。这些 sRNA 可以通过部分序列互补与靶 mRNA 相互作用，最终影响转录本的稳定性和翻译。sRNA 的生理功能取决于蛋白 Hfq，它在细胞内结合 sRNA 并促进其与 mRNA 靶标的相互作用。Hfq 作为 sRNA 介导调控的中心枢纽，其重要的生理功能使其成为细菌中研究最深入的蛋白质之一。最近，提出了一种新的 Hfq 结合 sRNA 的模型，该模型涉及 sRNA 3'端的直接识别以及 sRNA 主体与 Hfq 侧向 RNA 结合表面的相互作用。本文综述了 Hfq 及其（s）RNA 复合物的 RNA 结合特性的最新认识，讨论了新的结合模型对 sRNA 介导调控的影响。
相似文献
1
Structure and RNA-binding properties of the bacterial LSm protein Hfq.细菌 LSm 蛋白 Hfq 的结构和 RNA 结合特性。
RNA Biol. 2013 Apr;10(4):610-8. doi: 10.4161/rna.24201. Epub 2013 Mar 27.
2
Lsm proteins and Hfq: Life at the 3' end.Lsm 蛋白和 Hfq：3'端的生命。
RNA Biol. 2013 Apr;10(4):592-601. doi: 10.4161/rna.23695. Epub 2013 Feb 7.
3
Dynamic interactions between the RNA chaperone Hfq, small regulatory RNAs, and mRNAs in live bacterial cells.活细菌细胞中 RNA 伴侣 Hfq、小调控 RNA 和 mRNAs 之间的动态相互作用。
Elife. 2021 Feb 22;10:e64207. doi: 10.7554/eLife.64207.
4
Competition among Hfq-binding small RNAs in Escherichia coli.在大肠杆菌中 Hfq 结合小 RNA 之间的竞争。
Mol Microbiol. 2011 Dec;82(6):1545-62. doi: 10.1111/j.1365-2958.2011.07907.x. Epub 2011 Nov 20.
5
Cycling of RNAs on Hfq.RNA 在 Hfq 上的循环。
RNA Biol. 2013 Apr;10(4):619-26. doi: 10.4161/rna.24044. Epub 2013 Mar 6.
6
Hfq binding changes the structure of small noncoding RNAs OxyS and RprA, which are involved in the riboregulation of .Hfq 结合改变了小分子非编码 RNA OxyS 和 RprA 的结构，它们参与了. 的核糖调控。
RNA. 2013 Aug;19(8):1089-104. doi: 10.1261/rna.034595.112. Epub 2013 Jun 26.
7
New aspects of RNA-based regulation by Hfq and its partner sRNAs.基于 Hfq 及其伴侣 sRNAs 的 RNA 调控的新方面。
Curr Opin Microbiol. 2018 Apr;42:53-61. doi: 10.1016/j.mib.2017.10.014. Epub 2017 Nov 7.
8
The interplay of Hfq, poly(A) polymerase I and exoribonucleases at the 3' ends of RNAs resulting from Rho-independent termination: A tentative model.Rho 独立终止后产生的 RNA 3' 端的 Hfq、多聚（A）聚合酶 I 和外切核酸酶的相互作用：一个暂定模型。
RNA Biol. 2013 Apr;10(4):602-9. doi: 10.4161/rna.23664. Epub 2013 Feb 7.
9
Polynucleotide phosphorylase promotes the stability and function of Hfq-binding sRNAs by degrading target mRNA-derived fragments.多核苷酸磷酸化酶通过降解靶 mRNA 衍生片段促进 Hfq 结合的 sRNAs 的稳定性和功能。
Nucleic Acids Res. 2019 Sep 19;47(16):8821-8837. doi: 10.1093/nar/gkz616.
10
Acidic Residues in the Hfq Chaperone Increase the Selectivity of sRNA Binding and Annealing.Hfq伴侣蛋白中的酸性残基提高了小RNA结合与退火的选择性。
J Mol Biol. 2015 Nov 6;427(22):3491-3500. doi: 10.1016/j.jmb.2015.07.010. Epub 2015 Jul 18.
引用本文的文献
1
Competition for Hfq drives kinetic selection of mRNA targets by small noncoding RNAs.对Hfq的竞争驱动小非编码RNA对mRNA靶标的动力学选择。
Proc Natl Acad Sci U S A. 2025 Jul 15;122(28):e2503747122. doi: 10.1073/pnas.2503747122. Epub 2025 Jul 10.
2
The RNA-binding protein is required for growth in high levels of zinc and persistence with host cells.RNA 结合蛋白是在高锌水平下生长以及与宿主细胞持续共存所必需的。
Front Cell Infect Microbiol. 2025 May 15;15:1569544. doi: 10.3389/fcimb.2025.1569544. eCollection 2025.
3
Unexpected Richness of the Bacterial Small RNA World.细菌小RNA世界的意外丰富性
J Mol Biol. 2025 Jun 1;437(11):169045. doi: 10.1016/j.jmb.2025.169045. Epub 2025 Feb 25.
4
HP-Bodies - Ancestral Condensates that Regulate RNA Turnover and Protein Translation in Bacteria.HP小体——调控细菌RNA周转和蛋白质翻译的祖先凝聚物
bioRxiv. 2025 Feb 6:2025.02.06.636932. doi: 10.1101/2025.02.06.636932.
5
Two temperature-responsive RNAs act in concert: the small RNA CyaR and the mRNA ompX.两种温度响应性RNA协同作用：小RNA CyaR和mRNA ompX。
Nucleic Acids Res. 2025 Jan 24;53(3). doi: 10.1093/nar/gkaf041.
6
An sRNA overexpression library reveals AbnZ as a negative regulator of an essential translocation module in Caulobacter crescentus.一个小RNA过表达文库揭示了AbnZ是新月柄杆菌中一个必需转运模块的负调控因子。
Nucleic Acids Res. 2025 Jan 7;53(1). doi: 10.1093/nar/gkae1139.
7
RNA compaction and iterative scanning for small RNA targets by the Hfq chaperone.Hfq 伴侣蛋白对 RNA 的紧缩作用和对小 RNA 靶标的迭代扫描。
Nat Commun. 2024 Mar 7;15(1):2069. doi: 10.1038/s41467-024-46316-6.
8
Insights into the complementation potential of the extreme acidophile's orthologue in replacing Escherichia coli hfq gene-particularly in bacterial resistance to environmental stress.深入了解嗜酸极端菌同源物在取代大肠杆菌 hfq 基因方面的互补潜力——特别是在细菌对环境胁迫的抗性方面。
World J Microbiol Biotechnol. 2024 Feb 22;40(4):105. doi: 10.1007/s11274-024-03924-0.
9
Analysis of Lsm Protein-Mediated Regulation in the Haloarchaeon .分析嗜盐古菌中 Lsm 蛋白介导的调控作用。
Int J Mol Sci. 2024 Jan 1;25(1):580. doi: 10.3390/ijms25010580.
10
Hfq C-terminal region forms a β-rich amyloid-like motif without perturbing the N-terminal Sm-like structure.Hfq C 端区域形成富含 β 结构的淀粉样样 motif，而不干扰 N 端 Sm 样结构。
Commun Biol. 2023 Oct 21;6(1):1075. doi: 10.1038/s42003-023-05462-1.
本文引用的文献
1
Structural mechanism of Staphylococcus aureus Hfq binding to an RNA A-tract.金黄色葡萄球菌 Hfq 结合 RNA A tract 的结构机制。
Nucleic Acids Res. 2012 Nov;40(21):11023-35. doi: 10.1093/nar/gks809. Epub 2012 Sep 10.
2
The seed region of a small RNA drives the controlled destruction of the target mRNA by the endoribonuclease RNase E.小 RNA 的种子区域驱动内切核酸酶 RNase E 对靶 mRNA 的可控破坏。
Mol Cell. 2012 Sep 28;47(6):943-53. doi: 10.1016/j.molcel.2012.07.015. Epub 2012 Aug 16.
3
Hfq proximity and orientation controls RNA annealing.Hfq 接近度和取向控制 RNA 的退火。
Nucleic Acids Res. 2012 Sep 1;40(17):8690-7. doi: 10.1093/nar/gks618. Epub 2012 Jul 2.
4
The low-resolution solution structure of Hfq in complex with Qrr1 sRNA.Hfq 与 Qrr1 sRNA 复合物的低分辨率溶液结构。
Nucleic Acids Res. 2012 Sep 1;40(17):8698-710. doi: 10.1093/nar/gks582. Epub 2012 Jun 22.
5
Requirement of upstream Hfq-binding (ARN)x elements in glmS and the Hfq C-terminal region for GlmS upregulation by sRNAs GlmZ and GlmY.上游 Hfq 结合 (ARN)x 元件和 Hfq C 末端区域在 glmS 上调中的要求 GlmZ 和 GlmY 的 sRNAs。
Nucleic Acids Res. 2012 Sep;40(16):8021-32. doi: 10.1093/nar/gks392. Epub 2012 May 31.
6
Small RNA binding to the lateral surface of Hfq hexamers and structural rearrangements upon mRNA target recognition.小 RNA 结合到 Hfq 六聚体的侧面，并在识别 mRNA 靶标时发生结构重排。
Proc Natl Acad Sci U S A. 2012 Jun 12;109(24):9396-401. doi: 10.1073/pnas.1202521109. Epub 2012 May 29.
7
Current knowledge on regulatory RNAs and their machineries in Staphylococcus aureus.金黄色葡萄球菌中调控 RNA 及其相关机器的研究进展。
RNA Biol. 2012 Apr;9(4):402-13. doi: 10.4161/rna.20103. Epub 2012 Apr 1.
8
The functional Hfq-binding module of bacterial sRNAs consists of a double or single hairpin preceded by a U-rich sequence and followed by a 3' poly(U) tail.细菌 sRNA 的功能性 Hfq 结合模块由一个双链或单链发夹组成，前面是一个富含 U 的序列，后面是一个 3' 多聚（U）尾。
RNA. 2012 May;18(5):1062-74. doi: 10.1261/rna.031575.111. Epub 2012 Mar 27.
9
Hexamer to monomer equilibrium of E. coli Hfq in solution and its impact on RNA annealing.大肠杆菌 Hfq 溶液中的六聚体到单体平衡及其对 RNA 退火的影响。
J Mol Biol. 2012 Apr 13;417(5):406-12. doi: 10.1016/j.jmb.2012.02.009. Epub 2012 Feb 10.
10
Crystal structure of Hfq from Bacillus subtilis in complex with SELEX-derived RNA aptamer: insight into RNA-binding properties of bacterial Hfq.枯草芽孢杆菌 Hfq 与 SELEX 衍生 RNA 适体复合物的晶体结构：细菌 Hfq 与 RNA 结合特性的深入了解。
Nucleic Acids Res. 2012 Feb;40(4):1856-67. doi: 10.1093/nar/gkr892. Epub 2011 Nov 3.
Zotero 插件