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	Structural dynamics of AAA + ATPase Drg1 and mechanism of benzo-diazaborine inhibition.
ジャーナル・号・ページ	Nat Commun, Vol. 13, Issue 1, Page 6765, Year 2022
掲載日	2022年11月9日
著者	Chengying Ma / Damu Wu / Qian Chen / Ning Gao /
PubMed 要旨	The type II AAA + ATPase Drg1 is a ribosome assembly factor, functioning to release Rlp24 from the pre-60S particle just exported from nucleus, and its activity in can be inhibited by a drug ...The type II AAA + ATPase Drg1 is a ribosome assembly factor, functioning to release Rlp24 from the pre-60S particle just exported from nucleus, and its activity in can be inhibited by a drug molecule diazaborine. However, molecular mechanisms of Drg1-mediated Rlp24 removal and diazaborine-mediated inhibition are not fully understood. Here, we report Drg1 structures in different nucleotide-binding and benzo-diazaborine treated states. Drg1 hexamers transits between two extreme conformations (planar or helical arrangement of protomers). By forming covalent adducts with ATP molecules in both ATPase domain, benzo-diazaborine locks Drg1 hexamers in a symmetric and non-productive conformation to inhibits both inter-protomer and inter-ring communication of Drg1 hexamers. We also obtained a substrate-engaged mutant Drg1 structure, in which conserved pore-loops form a spiral staircase to interact with the polypeptide through a sequence-independent manner. Structure-based mutagenesis data highlight the functional importance of the pore-loop, the D1-D2 linker and the inter-subunit signaling motif of Drg1, which share similar regulatory mechanisms with p97. Our results suggest that Drg1 may function as an unfoldase that threads a substrate protein within the pre-60S particle.
リンク	Nat Commun / PubMed:36351914 / PubMed Central
手法	EM (単粒子)
解像度	3.6 - 5.9 Å
構造データ	32396 7wbb EMDB-32396, PDB-7wbb: Cryo-EM structure of substrate engaged Drg1 hexamer 手法: EM (単粒子) / 解像度: 3.6 Å 32397 7ykk EMDB-32397: The Cryo-EM structure of Drg1 hexamer treated with ADP PDB-7ykk: Cryo-EM structure of Drg1 hexamer treated with ADP 手法: EM (単粒子) / 解像度: 5.9 Å 32399 7ykl EMDB-32399: The Cryo-EM structure of Drg1 hexamer treated with AMPPNP PDB-7ykl: Cryo-EM structure of Drg1 hexamer treated with AMPPNP 手法: EM (単粒子) / 解像度: 5.6 Å 32400 7ykt EMDB-32400: The Cryo-EM structure of Drg1 hexamer in helical state treated with ADP/AMPPNP/benzo-diazaborine PDB-7ykt: Cryo-EM structure of Drg1 hexamer in helical state treated with ADP/AMPPNP/benzo-diazaborine 手法: EM (単粒子) / 解像度: 5.9 Å 32402 7ykz EMDB-32402: The Cryo-EM structure of Drg1 hexamer in planar state treated with ADP/AMPPNP/benzo-diazaborine PDB-7ykz: Cryo-EM structure of Drg1 hexamer in the planar state treated with ADP/AMPPNP/Diazaborine 手法: EM (単粒子) / 解像度: 4.3 Å 32403 7wd3 EMDB-32403: Cryo-EM structure of Drg1 hexamer treated with ATP/benzo-diazaborine PDB-7wd3: Cryo-EM structure of Drg1 hexamer treated with ATP and benzo-diazaborine 手法: EM (単粒子) / 解像度: 3.8 Å
化合物	ChemComp-ATP: ADENOSINE-5'-TRIPHOSPHATE / ATP / ATP, エネルギー貯蔵分子YM ChemComp-NDT: 2-(TOLUENE-4-SULFONYL)-2H-BENZO[D][1,2,3]DIAZABORININ-1-OL / ジアザボリンB ChemComp-ADP: ADENOSINE-5'-DIPHOSPHATE / ADP / ADP, エネルギー貯蔵分子YM
由来	saccharomyces cerevisiae (パン酵母) escherichia coli (大腸菌)
キーワード	ATP-binding protein / cryo-EM structure of Drg1 / RIBOSOME / Drg1 / RIBOSOMAL PROTEIN / Involved in maturation of pre-60S ribosomal particles