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 snapshots of TRPV1 reveal mechanism of polymodal functionality.
ジャーナル・号・ページ	Cell, Vol. 184, Issue 20, Page 5138-5150.e12, Year 2021
掲載日	2021年9月30日
著者	Kaihua Zhang / David Julius / Yifan Cheng /
PubMed 要旨	Many transient receptor potential (TRP) channels respond to diverse stimuli and conditionally conduct small and large cations. Such functional plasticity is presumably enabled by a uniquely dynamic ...Many transient receptor potential (TRP) channels respond to diverse stimuli and conditionally conduct small and large cations. Such functional plasticity is presumably enabled by a uniquely dynamic ion selectivity filter that is regulated by physiological agents. What is currently missing is a "photo series" of intermediate structural states that directly address this hypothesis and reveal specific mechanisms behind such dynamic channel regulation. Here, we exploit cryoelectron microscopy (cryo-EM) to visualize conformational transitions of the capsaicin receptor, TRPV1, as a model to understand how dynamic transitions of the selectivity filter in response to algogenic agents, including protons, vanilloid agonists, and peptide toxins, permit permeation by small and large organic cations. These structures also reveal mechanisms governing ligand binding substates, as well as allosteric coupling between key sites that are proximal to the selectivity filter and cytoplasmic gate. These insights suggest a general framework for understanding how TRP channels function as polymodal signal integrators.
リンク	Cell / PubMed:34496225 / PubMed Central
手法	EM (単粒子)
解像度	2.6 - 3.89 Å
構造データ	23128 7l2h EMDB-23128, PDB-7l2h: Cryo-EM structure of unliganded full-length TRPV1 at neutral pH 手法: EM (単粒子) / 解像度: 2.63 Å 23129 7l2i EMDB-23129, PDB-7l2i: Cryo-EM structure of full-length TRPV1 at pH6a state 手法: EM (単粒子) / 解像度: 3.7 Å 23130 7l2j EMDB-23130, PDB-7l2j: Cryo-EM structure of full-length TRPV1 at pH6c state 手法: EM (単粒子) / 解像度: 3.66 Å 23131 7l2k EMDB-23131, PDB-7l2k: Cryo-EM structure of full-length TRPV1 at pH6b state 手法: EM (単粒子) / 解像度: 3.89 Å 23132 7l2l EMDB-23132, PDB-7l2l: Cryo-EM structure of RTX-bound full-length TRPV1 in O1 state 手法: EM (単粒子) / 解像度: 3.42 Å 23133 7l2m EMDB-23133, PDB-7l2m: Cryo-EM structure of DkTx/RTX-bound full-length TRPV1 手法: EM (単粒子) / 解像度: 3.84 Å 23134 7l2n EMDB-23134, PDB-7l2n: Cryo-EM structure of RTX-bound full-length TRPV1 in C1 state 手法: EM (単粒子) / 解像度: 3.09 Å 23135 7l2o EMDB-23135, PDB-7l2o: Cryo-EM structure of RTX-bound full-length TRPV1 at pH 5.5 手法: EM (単粒子) / 解像度: 3.64 Å 23136 7l2p EMDB-23136, PDB-7l2p: cryo-EM structure of unliganded minimal TRPV1 手法: EM (単粒子) / 解像度: 2.6 Å 23138 7l2r EMDB-23138, PDB-7l2r: Cryo-EM structure of DkTx-bound minimal TRPV1 at the pre-open state 手法: EM (単粒子) / 解像度: 3.3 Å 23139 7l2s EMDB-23139, PDB-7l2s: cryo-EM structure of DkTx-bound minimal TRPV1 at the pre-bound state 手法: EM (単粒子) / 解像度: 2.71 Å 23140 7l2t EMDB-23140, PDB-7l2t: cryo-EM structure of DkTx-bound minimal TRPV1 in partial open state 手法: EM (単粒子) / 解像度: 3.08 Å 23141 7l2u EMDB-23141, PDB-7l2u: cryo-EM structure of DkTx-bound minimal TRPV1 in open state 手法: EM (単粒子) / 解像度: 3.47 Å 23142 7l2v EMDB-23142, PDB-7l2v: cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state b 手法: EM (単粒子) / 解像度: 3.64 Å 23143 7l2w EMDB-23143, PDB-7l2w: cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state a 手法: EM (単粒子) / 解像度: 3.16 Å 23144 7l2x EMDB-23144, PDB-7l2x: cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state c 手法: EM (単粒子) / 解像度: 3.26 Å EMDB-23161: Cryo-EM structure of DkTx-bound minimal TRPV1 at the singly-bound state 手法: EM (単粒子) / 解像度: 3.03 Å 24083 7mz5 EMDB-24083, PDB-7mz5: Cryo-EM structure of RTX-bound full-length TRPV1 in C2 state 手法: EM (単粒子) / 解像度: 2.76 Å 24084 7mz6 EMDB-24084, PDB-7mz6: Cryo-EM structure of minimal TRPV1 with 1 perturbed PI 手法: EM (単粒子) / 解像度: 2.91 Å 24085 7mz7 EMDB-24085, PDB-7mz7: Cryo-EM structure of minimal TRPV1 with 4 partially bound RTX 手法: EM (単粒子) / 解像度: 3.35 Å 24086 7mz9 EMDB-24086, PDB-7mz9: Cryo-EM structure of minimal TRPV1 with 1 partially bound RTX 手法: EM (単粒子) / 解像度: 3.18 Å 24087 7mza EMDB-24087, PDB-7mza: Cryo-EM structure of minimal TRPV1 with 2 bound RTX in adjacent pockets 手法: EM (単粒子) / 解像度: 3.46 Å 24088 7mzb EMDB-24088, PDB-7mzb: Cryo-EM structure of minimal TRPV1 with 3 bound RTX and 1 perturbed PI 手法: EM (単粒子) / 解像度: 3.72 Å 24089 7mzc EMDB-24089, PDB-7mzc: Cryo-EM structure of minimal TRPV1 with RTX bound in C1 state 手法: EM (単粒子) / 解像度: 3.03 Å 24090 7mzd EMDB-24090, PDB-7mzd: Cryo-EM structure of minimal TRPV1 with RTX bound in C2 state 手法: EM (単粒子) / 解像度: 2.9 Å 24091 7mze EMDB-24091, PDB-7mze: Cryo-EM structure of minimal TRPV1 with 2 bound RTX in opposite pockets 手法: EM (単粒子) / 解像度: 3.42 Å
化合物	ChemComp-XJ7: (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate ChemComp-XJD: (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl tridecanoate ChemComp-NA: Unknown entry / ナトリウムカチオン ChemComp-XJA: (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1S,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate ChemComp-6EU: resiniferatoxin / レシニフェラトキシン / toxinYM / レシニフェラトキシン ChemComp-6IY: (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate ChemComp-65I: (9R,12R)-15-amino-12-hydroxy-6,12-dioxo-7,11,13-trioxa-12lambda~5~-phosphapentadecan-9-yl undecanoate ChemComp-HOH: WATER / 水 ChemComp-XKP: (11R,14S)-17-amino-14-hydroxy-8,14-dioxo-9,13,15-trioxa-14lambda~5~-phosphaheptadecan-11-yl decanoate ChemComp-XPS: 6-deoxy-6-(methylamino)-D-galactitol ChemComp-XPJ*: 1-deoxy-1-(methylamino)-D-allitol / メグルミン
由来	rattus norvegicus (ドブネズミ) Cyriopagopus schmidtiCyriopagopus schmidti (クモ) cyriopagopus schmidti (クモ)
キーワード	TRANSPORT PROTEIN (運搬体タンパク質) / TRP channel (TRPチャネル) / cryo-EM (低温電子顕微鏡法) / nanodisc / full length / proton (陽子) / vanilloid agonist / toxin (毒素) / large cation / stoichiometry (化学量論)