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	Structure of a TRAPPII-Rab11 activation intermediate reveals GTPase substrate selection mechanisms.
ジャーナル・号・ページ	Sci Adv, Vol. 8, Issue 19, Page eabn7446, Year 2022
掲載日	2022年5月13日
著者	Saket R Bagde / J Christopher Fromme /
PubMed 要旨	Rab1 and Rab11 are essential regulators of the eukaryotic secretory and endocytic recycling pathways. The transport protein particle (TRAPP) complexes activate these guanosine triphosphatases via ...Rab1 and Rab11 are essential regulators of the eukaryotic secretory and endocytic recycling pathways. The transport protein particle (TRAPP) complexes activate these guanosine triphosphatases via nucleotide exchange using a shared set of core subunits. The basal specificity of the TRAPP core is toward Rab1, yet the TRAPPII complex is specific for Rab11. A steric gating mechanism has been proposed to explain TRAPPII counterselection against Rab1. Here, we present cryo-electron microscopy structures of the 22-subunit TRAPPII complex from budding yeast, including a TRAPPII-Rab11 nucleotide exchange intermediate. The Trs130 subunit provides a "leg" that positions the active site distal to the membrane surface, and this leg is required for steric gating. The related TRAPPIII complex is unable to activate Rab11 because of a repulsive interaction, which TRAPPII surmounts using the Trs120 subunit as a "lid" to enclose the active site. TRAPPII also adopts an open conformation enabling Rab11 to access and exit from the active site chamber.
リンク	Sci Adv / PubMed:35559680 / PubMed Central
手法	EM (単粒子)
解像度	3.4 - 9.2 Å
構造データ	EMDB-26221: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (consensus map of symmetric dimer) 手法: EM (単粒子) / 解像度: 4.1 Å EMDB-26223: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of closed monomer) 手法: EM (単粒子) / 解像度: 3.7 Å EMDB-26224: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of dimer interface) 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-26225: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of central region of closed monomer) 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-26226: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of core and Ypt32) 手法: EM (単粒子) / 解像度: 3.4 Å EMDB-26227: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Ypt32 and region around Ypt32) 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-26228: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Trs130 N-terminal region, Tca17, Trs33 and Bet3) 手法: EM (単粒子) / 解像度: 3.7 Å EMDB-26229: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Trs130 middle region, Tca17, Trs33 and Bet3) 手法: EM (単粒子) / 解像度: 3.7 Å EMDB-26230: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Trs120 N-terminal region and Trs20) 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-26231: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Trs120 middle region) 手法: EM (単粒子) / 解像度: 3.7 Å EMDB-26232: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (focused refinement of Trs65 N-terminal region, Trs130 C-terminal region, Trs120 N-terminal region, Trs20, Trs31 and Bet3) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26233: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (consensus map of asymmetric dimer state A) 手法: EM (単粒子) / 解像度: 4.5 Å EMDB-26234: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of open monomer) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26235: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of closed monomer in asymmetric dimer state A) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26236: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of dimer interface) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26237: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Tca17, Trs33 and Bet3 in the open monomer) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26238: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of core in the open monomer) 手法: EM (単粒子) / 解像度: 3.8 Å EMDB-26239: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs120 N-terminal region and Trs20 in the open monomer) 手法: EM (単粒子) / 解像度: 3.8 Å EMDB-26240: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs120 middle region in the open monomer) 手法: EM (単粒子) / 解像度: 4.3 Å EMDB-26241: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of central region in the open monomer) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26242: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs130 middle region in the open monomer) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26243: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs65 N-terminal region in the open monomer) 手法: EM (単粒子) / 解像度: 8.6 Å EMDB-26244: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs130 N-terminal region, Tca17, Trs33 and Bet3 in the open monomer) 手法: EM (単粒子) / 解像度: 4.3 Å EMDB-26245: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of core and Ypt32 in the closed monomer) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26246: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs120 N-terminal region and Trs20 in the closed monomer) 手法: EM (単粒子) / 解像度: 3.9 Å EMDB-26248: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs120 middle region in the closed monomer) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26249: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of central region of the closed monomer) 手法: EM (単粒子) / 解像度: 4.0 Å EMDB-26250: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs130 middle region in the closed monomer) 手法: EM (単粒子) / 解像度: 4.3 Å EMDB-26251: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs130 middle region, Tca17, Trs33 and Bet3 in the closed monomer) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26252: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs130 N-terminal region, Tca17, Trs33 and Bet3 in the closed monomer) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26253: Yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (focused refinement of Trs65 N-terminal region in the closed monomer) 手法: EM (単粒子) / 解像度: 9.2 Å 26254 7u05 EMDB-26254, PDB-7u05: Structure of the yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (composite structure) 手法: EM (単粒子) / 解像度: 3.7 Å 26255 7u06 EMDB-26255, PDB-7u06: Structure of the yeast TRAPPII-Rab11/Ypt32 complex in the closed/open state (composite structure) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26269: Yeast TRAPPII complex in the closed/open state (consensus map) 手法: EM (単粒子) / 解像度: 4.7 Å EMDB-26270: Yeast TRAPPII complex in the closed/closed state (consensus map) 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-26271: Yeast TRAPPII complex in the partially open/open state (consensus map) 手法: EM (単粒子) / 解像度: 4.9 Å EMDB-26272: Yeast TRAPPII complex in the closed/partially open (consensus map) 手法: EM (単粒子) / 解像度: 4.9 Å
化合物	ChemComp-PLM: PALMITIC ACID / パルミチン酸
由来	saccharomyces cerevisiae (パン酵母) Baker's yeast (パン酵母)
キーワード	PROTEIN TRANSPORT / complex / GTPase / Guanosine Exchange Factor / GEF