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	Cryo-EM structures of prokaryotic ligand-gated ion channel GLIC provide insights into gating in a lipid environment.
ジャーナル・号・ページ	Nat Commun, Vol. 15, Issue 1, Page 2967, Year 2024
掲載日	2024年4月5日
著者	Nikhil Bharambe / Zhuowen Li / David Seiferth / Asha Manikkoth Balakrishna / Philip C Biggin / Sandip Basak /
PubMed 要旨	GLIC, a proton-activated prokaryotic ligand-gated ion channel, served as a model system for understanding the eukaryotic counterparts due to their structural and functional similarities. Despite ...GLIC, a proton-activated prokaryotic ligand-gated ion channel, served as a model system for understanding the eukaryotic counterparts due to their structural and functional similarities. Despite extensive studies conducted on GLIC, the molecular mechanism of channel gating in the lipid environment requires further investigation. Here, we present the cryo-EM structures of nanodisc-reconstituted GLIC at neutral and acidic pH in the resolution range of 2.6 - 3.4 Å. In our apo state at pH 7.5, the extracellular domain (ECD) displays conformational variations compared to the existing apo structures. At pH 4.0, three distinct conformational states (C1, C2 and O states) are identified. The protonated structures exhibit a compacted and counter-clockwise rotated ECD compared with our apo state. A gradual widening of the pore in the TMD is observed upon reducing the pH, with the widest pore in O state, accompanied by several layers of water pentagons. The pore radius and molecular dynamics (MD) simulations suggest that the O state represents an open conductive state. We also observe state-dependent interactions between several lipids and proteins that may be involved in the regulation of channel gating. Our results provide comprehensive insights into the importance of lipids impact on gating.
リンク	Nat Commun / PubMed:38580666 / PubMed Central
手法	EM (単粒子)
解像度	2.6476 - 3.42 Å
構造データ	35161 8i41 EMDB-35161, PDB-8i41: Cryo-EM structure of nanodisc (asolectin) reconstituted GLIC at pH 7.5 手法: EM (単粒子) / 解像度: 3.42 Å 35162 8i42 EMDB-35162, PDB-8i42: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 7.5 手法: EM (単粒子) / 解像度: 2.92 Å 35163 8i47 EMDB-35163, PDB-8i47: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 5.5 手法: EM (単粒子) / 解像度: 2.7 Å 35164 8i48 EMDB-35164, PDB-8i48: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in closed state 手法: EM (単粒子) / 解像度: 2.74 Å 36339 8jj3 EMDB-36339, PDB-8jj3: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 2.5 手法: EM (単粒子) / 解像度: 2.6476 Å 37446 8wcq EMDB-37446, PDB-8wcq: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in intermediate state 手法: EM (単粒子) / 解像度: 3.35 Å 37447 8wcr EMDB-37447, PDB-8wcr: Cryo-EM structure of nanodisc (PE:PS:PC) reconstituted GLIC at pH 4 in open state 手法: EM (単粒子) / 解像度: 2.74 Å
化合物	ChemComp-PLC: DIUNDECYL PHOSPHATIDYL CHOLINE / O-(1-O,2-O-ジドデカノイル-L-グリセロ-3-ホスホ)コリン / リン脂質YM ChemComp-PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine / DOPE, リン脂質YM / Discrete optimized protein energy ChemComp-HOH: WATER / 水 ChemComp-CL: Unknown entry / クロリド / 塩化物
由来	gloeobacter violaceus (バクテリア)
キーワード	MEMBRANE PROTEIN (膜タンパク質) / pentameric ligand-gated ion channels / cis-loop / cryo-EM (低温電子顕微鏡法) / nanodisc