在过渡态类似物ADP-氟化铝存在的情况下转录激活因子与σ54的结合：对激活因子机械化学作用的见解
Binding of transcriptional activators to sigma 54 in the presence of the transition state analog ADP-aluminum fluoride: insights into activator mechanochemical action.
作者信息
Chaney M, Grande R, Wigneshweraraj S R, Cannon W, Casaz P, Gallegos M T, Schumacher J, Jones S, Elderkin S, Dago A E, Morett E, Buck M
机构信息
Department of Biology and Biochemistry, Faculty of Life Sciences, Sir Alexander Fleming Building, Imperial College of Science Technology and Medicine, London SW7 2AZ, UK.
出版信息
Genes Dev. 2001 Sep 1;15(17):2282-94. doi: 10.1101/gad.205501.
Abstract
Conformational changes in sigma 54 (sigma(54)) and sigma(54)-holoenzyme depend on nucleotide hydrolysis by an activator. We now show that sigma(54) and its holoenzyme bind to the central ATP-hydrolyzing domains of the transcriptional activators PspF and NifA in the presence of ADP-aluminum fluoride, an analog of ATP in the transition state for hydrolysis. Direct binding of sigma(54) Region I to activator in the presence of ADP-aluminum fluoride was shown and inferred from in vivo suppression genetics. Energy transduction appears to occur through activator contacts to sigma(54) Region I. ADP-aluminum fluoride-dependent interactions and consideration of other AAA+ proteins provide insight into activator mechanochemical action.
摘要
σ54（σ(54)）及σ54全酶的构象变化取决于激活剂的核苷酸水解作用。我们现在表明，在ADP-氟化铝（一种处于水解过渡态的ATP类似物）存在的情况下，σ54及其全酶与转录激活剂PspF和NifA的中央ATP水解结构域结合。在ADP-氟化铝存在的情况下，σ54区域I与激活剂的直接结合已得到证实，并通过体内抑制遗传学推断得出。能量转导似乎是通过激活剂与σ54区域I的接触发生的。ADP-氟化铝依赖性相互作用以及对其他AAA+蛋白的考虑为激活剂的机械化学作用提供了见解。
相似文献
1
Binding of transcriptional activators to sigma 54 in the presence of the transition state analog ADP-aluminum fluoride: insights into activator mechanochemical action.在过渡态类似物ADP-氟化铝存在的情况下转录激活因子与σ54的结合：对激活因子机械化学作用的见解
Genes Dev. 2001 Sep 1;15(17):2282-94. doi: 10.1101/gad.205501.
2
The ATP hydrolyzing transcription activator phage shock protein F of Escherichia coli: identifying a surface that binds sigma 54.大肠杆菌中水解ATP的转录激活因子噬菌体休克蛋白F：鉴定与σ⁵⁴结合的表面。
Proc Natl Acad Sci U S A. 2003 Mar 4;100(5):2278-83. doi: 10.1073/pnas.0537525100. Epub 2003 Feb 24.
3
Novel substitutions in the sigma54-dependent activator DctD that increase dependence on upstream activation sequences or uncouple ATP hydrolysis from transcriptional activation.在σ54依赖型激活因子DctD中发现的新型替代突变，这些突变增加了对上游激活序列的依赖性，或者使ATP水解与转录激活解偶联。
Mol Microbiol. 2004 Oct;54(1):32-44. doi: 10.1111/j.1365-2958.2004.04246.x.
4
Sigma54-dependent transcription activator phage shock protein F of Escherichia coli: a fragmentation approach to identify sequences that contribute to self-association.大肠杆菌中依赖σ54的转录激活因子噬菌体休克蛋白F：一种用于鉴定有助于自我缔合序列的片段化方法。
Biochem J. 2004 Mar 15;378(Pt 3):735-44. doi: 10.1042/BJ20031464.
5
Reorganisation of an RNA polymerase-promoter DNA complex for DNA melting.为使DNA解链而对RNA聚合酶-启动子DNA复合物进行的重组。
EMBO J. 2004 Oct 27;23(21):4253-63. doi: 10.1038/sj.emboj.7600406. Epub 2004 Oct 7.
6
Regulatory sequences in sigma 54 localise near the start of DNA melting.σ54中的调控序列定位于DNA解链起始点附近。
J Mol Biol. 2001 Mar 2;306(4):681-701. doi: 10.1006/jmbi.2000.4393.
7
Sequences in sigma(54) region I required for binding to early melted DNA and their involvement in sigma-DNA isomerisation.与早期解链DNA结合所需的σ（54）区域I中的序列及其在σ-DNA异构化中的作用。
J Mol Biol. 2000 Apr 7;297(4):849-59. doi: 10.1006/jmbi.2000.3608.
8
Isomerization of a binary sigma-promoter DNA complex by transcription activators.转录激活因子对二元σ启动子DNA复合物的异构化作用。
Nat Struct Biol. 2000 Jul;7(7):594-601. doi: 10.1038/76830.
9
Nucleotide-dependent interactions between a fork junction-RNA polymerase complex and an AAA+ transcriptional activator protein.叉状连接-RNA聚合酶复合物与AAA+转录激活蛋白之间的核苷酸依赖性相互作用。
Nucleic Acids Res. 2004 Aug 27;32(15):4596-608. doi: 10.1093/nar/gkh755. Print 2004.
10
Communication between Esigma(54) , promoter DNA and the conserved threonine residue in the GAFTGA motif of the PspF sigma-dependent activator during transcription activation.在转录激活过程中，Esigma(54)、启动子DNA与PspF σ因子依赖性激活剂的GAFTGA基序中保守的苏氨酸残基之间的通讯。
Mol Microbiol. 2004 Oct;54(2):489-506. doi: 10.1111/j.1365-2958.2004.04280.x.
引用本文的文献
1
Real-time capture of σ transcription initiation intermediates reveals mechanism of ATPase-driven activation by limited unfolding.σ转录起始中间体的实时捕获揭示了ATP酶驱动的有限解折叠激活机制。
Nat Commun. 2025 Aug 4;16(1):7138. doi: 10.1038/s41467-025-61837-4.
2
Real-time capture of σ transcription initiation intermediates reveals mechanism of ATPase-driven activation by limited unfolding.实时捕获σ转录起始中间体揭示了ATP酶驱动的有限解折叠激活机制。
bioRxiv. 2025 Feb 8:2025.02.07.637174. doi: 10.1101/2025.02.07.637174.
3
Identification of critical amino acids in the DNA binding domain of LuxO: Lessons from a constitutive active LuxO.鉴定 LuxO DNA 结合结构域中的关键氨基酸：组成型激活 LuxO 的启示。
PLoS One. 2024 Sep 17;19(9):e0310444. doi: 10.1371/journal.pone.0310444. eCollection 2024.
4
A general mechanism for transcription bubble nucleation in bacteria.细菌转录泡形成的一般机制。
Proc Natl Acad Sci U S A. 2023 Apr 4;120(14):e2220874120. doi: 10.1073/pnas.2220874120. Epub 2023 Mar 27.
5
Mechanisms of DNA opening revealed in AAA+ transcription complex structures.AAA+ 转录复合物结构揭示的 DNA 开口机制。
Sci Adv. 2022 Dec 21;8(51):eadd3479. doi: 10.1126/sciadv.add3479.
6
Common Mechanism of Activated Catalysis in P-loop Fold Nucleoside Triphosphatases-United in Diversity.P 环折叠核苷三磷酸酶的激活催化的共同机制——多样性统一。
Biomolecules. 2022 Sep 22;12(10):1346. doi: 10.3390/biom12101346.
7
Common Patterns of Hydrolysis Initiation in P-loop Fold Nucleoside Triphosphatases.P 环折叠核苷三磷酸酶中水解起始的常见模式。
Biomolecules. 2022 Sep 22;12(10):1345. doi: 10.3390/biom12101345.
8
Bacterial Enhancer Binding Proteins-AAA Proteins in Transcription Activation.细菌增强子结合蛋白-AAA 蛋白在转录激活中的作用。
Biomolecules. 2020 Feb 25;10(3):351. doi: 10.3390/biom10030351.
9
Mechanisms of σ-Dependent Transcription Initiation and Regulation.σ 依赖性转录起始和调控的机制。
J Mol Biol. 2019 Sep 20;431(20):3960-3974. doi: 10.1016/j.jmb.2019.04.022. Epub 2019 Apr 25.
10
Omnipresent Maxwell's demons orchestrate information management in living cells.无处不在的麦克斯韦妖在活细胞中精心策划着信息管理。
Microb Biotechnol. 2019 Mar;12(2):210-242. doi: 10.1111/1751-7915.13378.
本文引用的文献
1
Regulatory sequences in sigma 54 localise near the start of DNA melting.σ54中的调控序列定位于DNA解链起始点附近。
J Mol Biol. 2001 Mar 2;306(4):681-701. doi: 10.1006/jmbi.2000.4393.
2
Three-dimensional structure of motor molecules.运动分子的三维结构。
Cell Mol Life Sci. 1999 Oct 15;56(3-4):184-99. doi: 10.1007/s000180050421.
3
Protein-protein interactions in the complex between the enhancer binding protein NIFA and the sensor NIFL from Azotobacter vinelandii.来自棕色固氮菌的增强子结合蛋白NIFA与传感器NIFL复合物中的蛋白质-蛋白质相互作用。
J Bacteriol. 2001 Feb;183(4):1359-68. doi: 10.1128/JB.183.4.1359-1368.2001.
4
Single amino acid substitution mutants of Klebsiella pneumoniae sigma(54) defective in transcription.肺炎克雷伯菌σ因子（54）中在转录方面存在缺陷的单氨基酸取代突变体。
Nucleic Acids Res. 2000 Nov 15;28(22):4419-27. doi: 10.1093/nar/28.22.4419.
5
Transcription initiation-defective forms of sigma(54) that differ in ability To function with a heteroduplex DNA template.在与异源双链DNA模板发挥功能的能力上存在差异的σ（54）转录起始缺陷形式。
J Bacteriol. 2000 Nov;182(22):6503-8. doi: 10.1128/JB.182.22.6503-6508.2000.
6
DNA melting within a binary sigma(54)-promoter DNA complex.二元σ⁵⁴启动子DNA复合物中的DNA解链
J Biol Chem. 2001 Jan 5;276(1):386-94. doi: 10.1074/jbc.M007779200.
7
Promoter opening by sigma(54) and sigma(70) RNA polymerases: sigma factor-directed alterations in the mechanism and tightness of control.由σ(54)和σ(70) RNA聚合酶介导的启动子开放：σ因子对机制和控制严格性的定向改变
Genes Dev. 2000 Sep 1;14(17):2242-55. doi: 10.1101/gad.794800.
8
Phosphorylation-induced signal propagation in the response regulator ntrC.响应调节蛋白ntrC中磷酸化诱导的信号传导
J Bacteriol. 2000 Sep;182(18):5188-95. doi: 10.1128/JB.182.18.5188-5195.2000.
9
The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor.细菌增强子依赖性σ（54）（σ（N））转录因子。
J Bacteriol. 2000 Aug;182(15):4129-36. doi: 10.1128/JB.182.15.4129-4136.2000.
10
AAA proteins. Lords of the ring.AAA蛋白。环状结构的主宰者。
J Cell Biol. 2000 Jul 10;150(1):F13-9. doi: 10.1083/jcb.150.1.f13.
Zotero 插件