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基本情報
登録情報 | データベース: EMDB / ID: EMD-23133 | ||||||||||||||||||
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タイトル | Cryo-EM structure of DkTx/RTX-bound full-length TRPV1 | ||||||||||||||||||
![]() | DkTx/RTX-bound full-length TRPV1 | ||||||||||||||||||
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機能・相同性 | ![]() temperature-gated ion channel activity / response to capsazepine / negative regulation of establishment of blood-brain barrier / sensory perception of mechanical stimulus / peptide secretion / urinary bladder smooth muscle contraction / detection of chemical stimulus involved in sensory perception of pain / smooth muscle contraction involved in micturition / TRP channels / cellular response to temperature stimulus ...temperature-gated ion channel activity / response to capsazepine / negative regulation of establishment of blood-brain barrier / sensory perception of mechanical stimulus / peptide secretion / urinary bladder smooth muscle contraction / detection of chemical stimulus involved in sensory perception of pain / smooth muscle contraction involved in micturition / TRP channels / cellular response to temperature stimulus / cellular response to acidic pH / ion channel regulator activity / excitatory extracellular ligand-gated monoatomic ion channel activity / fever generation / thermoception / detection of temperature stimulus involved in thermoception / glutamate secretion / negative regulation of systemic arterial blood pressure / chloride channel regulator activity / dendritic spine membrane / response to pH / monoatomic cation transmembrane transporter activity / cellular response to ATP / negative regulation of heart rate / temperature homeostasis / response to pain / cellular response to alkaloid / calcium ion import across plasma membrane / diet induced thermogenesis / behavioral response to pain / intracellularly gated calcium channel activity / cellular response to cytokine stimulus / detection of temperature stimulus involved in sensory perception of pain / negative regulation of mitochondrial membrane potential / ligand-gated monoatomic ion channel activity / extracellular ligand-gated monoatomic ion channel activity / monoatomic cation channel activity / monoatomic ion transmembrane transport / sensory perception of pain / : / phosphatidylinositol binding / cellular response to nerve growth factor stimulus / phosphoprotein binding / calcium ion transmembrane transport / microglial cell activation / calcium channel activity / lipid metabolic process / cellular response to growth factor stimulus / response to peptide hormone / transmembrane signaling receptor activity / calcium ion transport / positive regulation of nitric oxide biosynthetic process / cellular response to tumor necrosis factor / positive regulation of cytosolic calcium ion concentration / cellular response to heat / toxin activity / response to heat / postsynaptic membrane / protein homotetramerization / calmodulin binding / neuron projection / positive regulation of apoptotic process / external side of plasma membrane / neuronal cell body / lipid binding / dendrite / negative regulation of transcription by RNA polymerase II / extracellular region / ATP binding / identical protein binding / membrane / metal ion binding / plasma membrane 類似検索 - 分子機能 | ||||||||||||||||||
生物種 | ![]() ![]() ![]() ![]() | ||||||||||||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.84 Å | ||||||||||||||||||
![]() | Zhang K / Julius D / Cheng Y | ||||||||||||||||||
資金援助 | ![]() ![]()
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![]() | ![]() タイトル: Structural snapshots of TRPV1 reveal mechanism of polymodal functionality. 著者: Kaihua Zhang / David Julius / Yifan Cheng / ![]() 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. | ||||||||||||||||||
履歴 |
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構造の表示
ムービー |
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構造ビューア | EMマップ: ![]() ![]() ![]() |
添付画像 |
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ダウンロードとリンク
-EMDBアーカイブ
マップデータ | ![]() | 40.2 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 18.1 KB 18.1 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 7.2 KB | 表示 | ![]() |
画像 | ![]() | 261 KB | ||
その他 | ![]() ![]() | 29.8 MB 29.7 MB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
関連構造データ | ![]() 7l2mMC ![]() 7l2hC ![]() 7l2iC ![]() 7l2jC ![]() 7l2kC ![]() 7l2lC ![]() 7l2nC ![]() 7l2oC ![]() 7l2pC ![]() 7l2rC ![]() 7l2sC ![]() 7l2tC ![]() 7l2uC ![]() 7l2vC ![]() 7l2wC ![]() 7l2xC ![]() 7mz5C ![]() 7mz6C ![]() 7mz7C ![]() 7mz9C ![]() 7mzaC ![]() 7mzbC ![]() 7mzcC ![]() 7mzdC ![]() 7mzeC M: このマップから作成された原子モデル C: 同じ文献を引用 ( |
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類似構造データ |
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リンク
EMDBのページ | ![]() ![]() |
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「今月の分子」の関連する項目 |
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マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | DkTx/RTX-bound full-length TRPV1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.14 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
CCP4マップ ヘッダ情報:
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-添付データ
-ハーフマップ: DkTx/RTX-bound full-length TRPV1
ファイル | emd_23133_half_map_1.map | ||||||||||||
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注釈 | DkTx/RTX-bound full-length TRPV1 | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: DkTx/RTX-bound full-length TRPV1
ファイル | emd_23133_half_map_2.map | ||||||||||||
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注釈 | DkTx/RTX-bound full-length TRPV1 | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
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試料の構成要素
-全体 : full-length TRPV1 in nanodisc
全体 | 名称: full-length TRPV1 in nanodisc |
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要素 |
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-超分子 #1: full-length TRPV1 in nanodisc
超分子 | 名称: full-length TRPV1 in nanodisc / タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#2 |
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-超分子 #2: Transient receptor potential cation channel subfamily V member 1
超分子 | 名称: Transient receptor potential cation channel subfamily V member 1 タイプ: complex / ID: 2 / 親要素: 1 / 含まれる分子: #1 |
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由来(天然) | 生物種: ![]() ![]() |
組換発現 | 生物種: ![]() |
-超分子 #3: Tau-theraphotoxin-Hs1a
超分子 | 名称: Tau-theraphotoxin-Hs1a / タイプ: complex / ID: 3 / 親要素: 1 / 含まれる分子: #2 |
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由来(天然) | 生物種: ![]() |
組換発現 | 生物種: ![]() ![]() |
-分子 #1: Transient receptor potential cation channel subfamily V member 1
分子 | 名称: Transient receptor potential cation channel subfamily V member 1 タイプ: protein_or_peptide / ID: 1 / コピー数: 4 / 光学異性体: LEVO |
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由来(天然) | 生物種: ![]() ![]() |
分子量 | 理論値: 95.328156 KDa |
組換発現 | 生物種: ![]() |
配列 | 文字列: GAMGSEQRAS LDSEESESPP QENSCLDPPD RDPNCKPPPV KPHIFTTRSR TRLFGKGDSE EASPLDCPYE EGGLASCPII TVSSVLTIQ RPGDGPASVR PSSQDSVSAG EKPPRLYDRR SIFDAVAQSN CQELESLLPF LQRSKKRLTD SEFKDPETGK T CLLKAMLN ...文字列: GAMGSEQRAS LDSEESESPP QENSCLDPPD RDPNCKPPPV KPHIFTTRSR TRLFGKGDSE EASPLDCPYE EGGLASCPII TVSSVLTIQ RPGDGPASVR PSSQDSVSAG EKPPRLYDRR SIFDAVAQSN CQELESLLPF LQRSKKRLTD SEFKDPETGK T CLLKAMLN LHNGQNDTIA LLLDVARKTD SLKQFVNASY TDSYYKGQTA LHIAIERRNM TLVTLLVENG ADVQAAANGD FF KKTKGRP GFYFGELPLS LAACTNQLAI VKFLLQNSWQ PADISARDSV GNTVLHALVE VADNTVDNTK FVTSMYNEIL ILG AKLHPT LKLEEITNRK GLTPLALAAS SGKIGVLAYI LQREIHEPEC RHLSRKFTEW AYGPVHSSLY DLSCIDTCEK NSVL EVIAY SSSETPNRHD MLLVEPLNRL LQDKWDRFVK RIFYFNFFVY CLYMIIFTAA AYYRPVEGLP PYKLKNTVGD YFRVT GEIL SVSGGVYFFF RGIQYFLQRR PSLKSLFVDS YSEILFFVQS LFMLVSVVLY FSQRKEYVAS MVFSLAMGWT NMLYYT RGF QQMGIYAVMI EKMILRDLCR FMFVYLVFLF GFSTAVVTLI EDGKNNSLPM ESTPHKCRGS ACKPGNSYNS LYSTCLE LF KFTIGMGDLE FTENYDFKAV FIILLLAYVI LTYILLLNML IALMGETVNK IAQESKNIWK LQRAITILDT EKSFLKCM R KAFRSGKLLQ VGFTPDGKDD YRWCFRVDEV NWTTWNTNVG IINEDPGNCE GVKRTLSFSL RSGRVSGRNW KNFALVPLL RDASTRDRHA TQQEEVQLKH YTGSLKPEDA EVFKDSMVPG EK |
-分子 #2: Tau-theraphotoxin-Hs1a
分子 | 名称: Tau-theraphotoxin-Hs1a / タイプ: protein_or_peptide / ID: 2 / コピー数: 2 / 光学異性体: LEVO |
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由来(天然) | 生物種: ![]() |
分子量 | 理論値: 8.684185 KDa |
組換発現 | 生物種: ![]() ![]() |
配列 | 文字列: MDCAKEGEVC SWGKKCCDLD NFYCPMEFIP HCKKYKPYVP VTTNCAKEGE VCGWGSKCCH GLDCPLAFIP YCEKYR |
-分子 #3: resiniferatoxin
分子 | 名称: resiniferatoxin / タイプ: ligand / ID: 3 / コピー数: 4 / 式: 6EU |
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分子量 | 理論値: 628.708 Da |
Chemical component information | ![]() ChemComp-6EU: |
-分子 #4: SODIUM ION
分子 | 名称: SODIUM ION / タイプ: ligand / ID: 4 / コピー数: 3 |
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分子量 | 理論値: 22.99 Da |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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![]() | 単粒子再構成法 |
試料の集合状態 | particle |
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試料調製
緩衝液 | pH: 7.4 |
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糖包埋 | 材質: nanodisc |
グリッド | モデル: Quantifoil R1.2/1.3 / 材質: GOLD / メッシュ: 300 |
凍結 | 凍結剤: ETHANE |
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電子顕微鏡法
顕微鏡 | FEI TALOS ARCTICA |
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撮影 | フィルム・検出器のモデル: GATAN K3 (6k x 4k) / 平均電子線量: 55.4 e/Å2 |
電子線 | 加速電圧: 200 kV / 電子線源: ![]() |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD |
実験機器 | ![]() モデル: Talos Arctica / 画像提供: FEI Company |