EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Nucleic acid mediated activation of a short prokaryotic Argonaute immune system.
ジャーナル・号・ページ	Nat Commun, Vol. 15, Issue 1, Page 4852, Year 2024
掲載日	2024年6月6日
著者	Jithesh Kottur / Radhika Malik / Aneel K Aggarwal /
PubMed 要旨	A short prokaryotic Argonaute (pAgo) TIR-APAZ (SPARTA) defense system, activated by invading DNA to unleash its TIR domain for NAD(P) hydrolysis, was recently identified in bacteria. We report the ...A short prokaryotic Argonaute (pAgo) TIR-APAZ (SPARTA) defense system, activated by invading DNA to unleash its TIR domain for NAD(P) hydrolysis, was recently identified in bacteria. We report the crystal structure of SPARTA heterodimer in the absence of guide-RNA/target-ssDNA (2.66 Å) and a cryo-EM structure of the SPARTA oligomer (tetramer of heterodimers) bound to guide-RNA/target-ssDNA at nominal 3.15-3.35 Å resolution. The crystal structure provides a high-resolution view of SPARTA, revealing the APAZ domain as equivalent to the N, L1, and L2 regions of long pAgos and the MID domain containing a unique insertion (insert57). Cryo-EM structure reveals regions of the PIWI (loop10-9) and APAZ (helix αN) domains that reconfigure for nucleic-acid binding and decrypts regions/residues that reorganize to expose a positively charged pocket for higher-order assembly. The TIR domains amass in a parallel-strands arrangement for catalysis. We visualize SPARTA before and after RNA/ssDNA binding and uncover the basis of its active assembly leading to abortive infection.
リンク	Nat Commun / PubMed:38844755 / PubMed Central
手法	EM (単粒子) / X線回折
解像度	2.66 - 3.37 Å
構造データ	EMDB-41945: Locally refined (symmetry based) cryo-EM map of the dimer of the SPARTA oligomer with guide RNA and target DNA 手法: EM (単粒子) / 解像度: 3.15 Å EMDB-41947: Locally refined (symmetry based) cryo-EM map of the second dimer of the SPARTA oligomer with guide RNA and target DNA 手法: EM (単粒子) / 解像度: 3.17 Å EMDB-41948: Focused refined cryo-EM map of the TIR domains of the SPARTA oligomer 手法: EM (単粒子) / 解像度: 3.37 Å EMDB-41959: Original Cryo-EM map of the SPARTA oligomer with guide RNA and target DNA 手法: EM (単粒子) / 解像度: 3.35 Å 41966 8u72 EMDB-41966, PDB-8u72: Cryo-EM structure of the SPARTA oligomer with guide RNA and target DNA 手法: EM (単粒子) / 解像度: 3.15 Å PDB-8u7b: Crystal structure of Apo form of Short Prokaryotic Argonaute TIR-APAZ (SPARTA) heterodimer 手法: X-RAY DIFFRACTION / 解像度: 2.66 Å
化合物	ChemComp-MG: Unknown entry / マグネシウムジカチオン ChemComp-HOH: WATER ChemComp-PRO: PROLINE / プロリン ChemComp-MN: Unknown entry
由来	thermoflavifilum thermophilum (バクテリア) synthetic construct (人工物)
キーワード	RNA BINDING PROTEIN/RNA/DNA / RNA / DNA / Argonaute / TIR / immune system / RNA BINDING PROTEIN-RNA-DNA complex / RNA BINDING PROTEIN / SPARTA / Short Prokaryotic Argonaute / APAZ