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 basis of TRPV1 modulation by endogenous bioactive lipids.
ジャーナル・号・ページ	Nat Struct Mol Biol, Year 2024
掲載日	2024年5月2日
著者	William R Arnold / Adamo Mancino / Frank R Moss / Adam Frost / David Julius / Yifan Cheng /
PubMed 要旨	TRP ion channels are modulated by phosphoinositide lipids, but the underlying structural mechanisms remain unclear. The capsaicin- and heat-activated receptor, TRPV1, has served as a model for ...TRP ion channels are modulated by phosphoinositide lipids, but the underlying structural mechanisms remain unclear. The capsaicin- and heat-activated receptor, TRPV1, has served as a model for deciphering lipid modulation, which is relevant to understanding how pro-algesic agents enhance channel activity in the setting of inflammatory pain. Identification of a pocket within the TRPV1 transmembrane core has provided initial clues as to how phosphoinositide lipids bind to and regulate the channel. Here we show that this regulatory pocket in rat TRPV1 can accommodate diverse lipid species, including the inflammatory lipid lysophosphatidic acid, whose actions are determined by their specific modes of binding. Furthermore, we show that an empty-pocket channel lacking an endogenous phosphoinositide lipid assumes an agonist-like state, even at low temperature, substantiating the concept that phosphoinositide lipids serve as negative TRPV1 modulators whose ejection from the binding pocket is a critical step toward activation by thermal or chemical stimuli.
リンク	Nat Struct Mol Biol / PubMed:38698206
手法	EM (単粒子)
解像度	2.2 - 3.7 Å
構造データ	40940 8t0c EMDB-40940, PDB-8t0c: TRPV1 in Nanodisc bound with lysophosphatidic acid in all four monomers 手法: EM (単粒子) / 解像度: 3.5 Å 40941 8t0e EMDB-40941, PDB-8t0e: TRPV1 in Nanodisc not bound with lysophosphatidic acid (apo) 手法: EM (単粒子) / 解像度: 3.3 Å 40949 8t0y EMDB-40949, PDB-8t0y: TRPV1 in nanodisc bound with one LPA in one monomer 手法: EM (単粒子) / 解像度: 3.5 Å 40951 8t10 EMDB-40951, PDB-8t10: TRPV1 in nanodisc bound with two LPA molecules in opposite monomers 手法: EM (単粒子) / 解像度: 3.7 Å 41005 8t3l EMDB-41005, PDB-8t3l: TRPV1 in nanodisc bound with 2 LPA molecules in neighboring monomers 手法: EM (単粒子) / 解像度: 3.6 Å 41006 8t3m EMDB-41006, PDB-8t3m: TRPV1 in nanodisc bound with 3 LPA molecules 手法: EM (単粒子) / 解像度: 3.5 Å 41847 8u2z EMDB-41847, PDB-8u2z: TRPV1 in nanodisc bound with diC8-PIP2 in the dilated state 手法: EM (単粒子) / 解像度: 3.6 Å 41848 8u30 EMDB-41848, PDB-8u30: TRPV1 in nanodisc bound with diC8-PIP2 in the closed state 手法: EM (単粒子) / 解像度: 3.0 Å 41855 8u3a EMDB-41855, PDB-8u3a: TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 1 (monomer) 手法: EM (単粒子) / 解像度: 2.3 Å 41857 8u3c EMDB-41857, PDB-8u3c: TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 2 (monomer) 手法: EM (単粒子) / 解像度: 2.3 Å 41864 8u3j EMDB-41864, PDB-8u3j: TRPV1 in nanodisc bound with empty vanilloid binding pocket at 4C 手法: EM (単粒子) / 解像度: 2.9 Å 41866 8u3l EMDB-41866, PDB-8u3l: TRPV1 in nanodisc bound with empty vanilloid binding pocket at 25C 手法: EM (単粒子) / 解像度: 3.7 Å 41873 8u43 EMDB-41873, PDB-8u43: TRPV1 in nanodisc bound with PIP2-Br4 手法: EM (単粒子) / 解像度: 2.4 Å 41879 8u4d EMDB-41879, PDB-8u4d: TRPV1 in nanodisc bound with PI-Br4, consensus structure 手法: EM (単粒子) / 解像度: 2.2 Å
化合物	ChemComp-NKN: (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate / 1-O-ミリストイル-L-グリセロ-ル3-りん酸 ChemComp-NA: Unknown entry / ナトリウムカチオン ChemComp-8IJ: (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate / 1-O-(1-O,2-O-ジステアロイル-L-グリセロ-3-ホスホ)-myo-イノシト-ル ChemComp-HOH: WATER / 水 ChemComp-85R: [(2~{R})-2-hexadecanoyloxy-3-[oxidanyl-[(2~{S},3~{S},5~{R},6~{S})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propyl] hexadecanoate / 1-O-(1-O,2-O-ジパルミトイル-L-グリセロ-3-ホスホ)-L-myo-イノシト-ル ChemComp-PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate / 1-O-(1-O,2-O-ジオクタノイル-L-グリセロ-3-ホスホ)-D-myo-イノシト-ル4,5-ビスりん酸 ChemComp-PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE / O-(1-O,2-O-ジオレオイル-L-グリセロ-3-ホスホ)コリン / DOPC, リン脂質YM ChemComp-CLR: CHOLESTEROL / コレステロ-ル / コレステロール化合物画像なし ChemComp-VPN: Unknown entry ChemComp-3PH: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE / ジステアロイルホスファチジン酸 / ホスファチジン酸化合物画像なし ChemComp-V5H*: Unknown entry
由来	rattus norvegicus (ドブネズミ)
キーワード	MEMBRANE PROTEIN (膜タンパク質) / TRPV1 (TRPV1) / lysophosphatidic acid (リゾホスファチジン酸) / TRPV1 in nanodisc bound with one LPA in one monomer (TRPV1) / TRPV1 in nanodisc bound with two LPA molecules in opposite monomers (TRPV1) / TRPV1 in nanodisc bound with diC8-PIP2 in the dilated state (TRPV1) / TRPV1 in nanodisc bound with diC8-PIP2 in the closed state (TRPV1) / TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 1 (monomer) (TRPV1) / TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 2 (monomer) (TRPV1) / TRPV1 in nanodisc bound with empty vanilloid binding pocket at 4C (TRPV1) / TRPV1 in nanodisc bound with empty vanilloid binding pocket at 25C (TRPV1) / TRPV1 in nanodisc bound with PIP2-Br4 MEMBRANE PROTEIN (TRPV1) / TRPV1 in nanodisc bound with PI-Br4 (TRPV1) / consensus structure MEMBRANE PROTEIN