Structural distinctions between NAD+ riboswitch domains 1 and 2 determine differential folding and ligand binding.
Structural distinctions between NAD+ riboswitch domains 1 and 2 determine differential folding and ligand binding.
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NAD( ) 核糖开关结构域 1 和 2 之间的结构差异决定了差异折叠和配体结合
DOI：
10.1093/nar/gkaa1029
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发表时间：
2020-12-02
影响因子：
14.9
通讯作者：
Ren A
中科院分区：
文献类型：
--
作者：
Chen H;Egger M;Xu X;Flemmich L;Krasheninina O;Sun A;Micura R;Ren A
核糖开关是在细菌mRNA中经常遇到的重要基因调节元素。到目前为止，诱导的结构调制，因此，在这里不清楚同源配体的身份和调节机制。不同的配体亲和力，并描述其结合口袋的Mg2+依赖性，独特的折叠和预组织，我们推测了NADA RNA基因调节的可能场景，作为假定的两种浓度传感器模块，以使较低的ligriig ander inigrig nigrigrig nigriig and consemantigrantigrantigrantigrantigrantigrantigrantigry and Ligriig and lig nigrig and。在细胞（域2）。
Riboswitches are important gene regulatory elements frequently encountered in bacterial mRNAs. The recently discovered nadA riboswitch contains two similar, tandemly arrayed aptamer domains, with the first domain possessing high affinity for nicotinamide adenine dinucleotide (NAD+). The second domain which comprises the ribosomal binding site in a putative regulatory helix, however, has withdrawn from detection of ligand-induced structural modulation thus far, and therefore, the identity of the cognate ligand and the regulation mechanism have remained unclear. Here, we report crystal structures of both riboswitch domains, each bound to NAD+. Furthermore, we demonstrate that ligand binding to domain 2 requires significantly higher concentrations of NAD+ (or ADP retaining analogs) compared to domain 1. Using a fluorescence spectroscopic approach, we further shed light on the structural features which are responsible for the different ligand affinities, and describe the Mg2+-dependent, distinct folding and pre-organization of their binding pockets. Finally, we speculate about possible scenarios for nadA RNA gene regulation as a putative two-concentration sensor module for a time-controlled signal that is primed and stalled by the gene regulation machinery at low ligand concentrations (domain 1), and finally triggers repression of translation as soon as high ligand concentrations are reached in the cell (domain 2).
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DOI：
10.1107/s0907444904019158
发表时间：
2004-12-01
影响因子：
2.2
作者：
Emsley, P;Cowtan, K
通讯作者：
Cowtan, K
影响因子：
14.9
作者：
Geary C;Baudrey S;Jaeger L
通讯作者：
Jaeger L
影响因子：
14.8
作者：
Watson, Peter Y.;Fedor, Martha J.
通讯作者：
Fedor, Martha J.
DOI：
10.1107/s0907444909052925
发表时间：
2010-02
期刊：
Acta crystallographica. Section D, Biological crystallography
影响因子：
--
作者：
Adams PD;Afonine PV;Bunkóczi G;Chen VB;Davis IW;Echols N;Headd JJ;Hung LW;Kapral GJ;Grosse-Kunstleve RW;McCoy AJ;Moriarty NW;Oeffner R;Read RJ;Richardson DC;Richardson JS;Terwilliger TC;Zwart PH
通讯作者：
Zwart PH
影响因子：
12.4
作者：
Jones CP;Ferré-D'Amaré AR
通讯作者：
Ferré-D'Amaré AR