+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 7wm4 | ||||||||||||
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タイトル | Cryo-EM structure of tetrameric TLR3 in complex with dsRNA (90 bp) | ||||||||||||
要素 |
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キーワード | IMMUNE SYSTEM/RNA (免疫系) / innate immunity (自然免疫系) / IMMUNE SYSTEM (免疫系) / IMMUNE SYSTEM-RNA complex (免疫系) | ||||||||||||
機能・相同性 | 機能・相同性情報 type III interferon production / positive regulation of type III interferon production / response to dsRNA / regulation of dendritic cell cytokine production / inflammatory response to wounding / toll-like receptor 3 signaling pathway / necroptotic signaling pathway / positive regulation of cytokine production involved in inflammatory response / positive regulation of macrophage cytokine production / pattern recognition receptor activity ...type III interferon production / positive regulation of type III interferon production / response to dsRNA / regulation of dendritic cell cytokine production / inflammatory response to wounding / toll-like receptor 3 signaling pathway / necroptotic signaling pathway / positive regulation of cytokine production involved in inflammatory response / positive regulation of macrophage cytokine production / pattern recognition receptor activity / Toll様受容体 / cellular response to exogenous dsRNA / response to exogenous dsRNA / positive regulation of interferon-alpha production / positive regulation of type I interferon production / cellular response to interferon-beta / extrinsic apoptotic signaling pathway / positive regulation of chemokine production / JNK cascade / positive regulation of interleukin-12 production / positive regulation of interferon-beta production / positive regulation of interleukin-8 production / positive regulation of JNK cascade / microglial cell activation / response to virus / cellular response to virus / defense response / cellular response to type II interferon / positive regulation of non-canonical NF-kappaB signal transduction / cellular response to mechanical stimulus / positive regulation of angiogenesis / positive regulation of interleukin-6 production / transmembrane signaling receptor activity / male gonad development / positive regulation of tumor necrosis factor production / 分裂促進因子活性化タンパク質キナーゼ / double-stranded RNA binding / positive regulation of type II interferon production / cellular response to xenobiotic stimulus / signaling receptor activity / positive regulation of canonical NF-kappaB signal transduction / defense response to virus / エンドソーム / endosome membrane / 炎症 / positive regulation of apoptotic process / 自然免疫系 / endoplasmic reticulum membrane / 細胞膜 / positive regulation of transcription by RNA polymerase II / identical protein binding / 細胞膜 類似検索 - 分子機能 | ||||||||||||
生物種 | Mus musculus (ハツカネズミ) synthetic construct (人工物) | ||||||||||||
手法 | 電子顕微鏡法 / 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.2 Å | ||||||||||||
データ登録者 | Sakaniwa, K. / Ohto, U. / Shimizu, T. | ||||||||||||
資金援助 | 日本, 3件
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引用 | ジャーナル: Nat Commun / 年: 2023 タイトル: TLR3 forms a laterally aligned multimeric complex along double-stranded RNA for efficient signal transduction. 著者: Kentaro Sakaniwa / Akiko Fujimura / Takuma Shibata / Hideki Shigematsu / Toru Ekimoto / Masaki Yamamoto / Mitsunori Ikeguchi / Kensuke Miyake / Umeharu Ohto / Toshiyuki Shimizu / 要旨: Toll-like receptor 3 (TLR3) is a member of the TLR family, which plays an important role in the innate immune system and is responsible for recognizing viral double-stranded RNA (dsRNA). Previous ...Toll-like receptor 3 (TLR3) is a member of the TLR family, which plays an important role in the innate immune system and is responsible for recognizing viral double-stranded RNA (dsRNA). Previous biochemical and structural studies have revealed that a minimum length of approximately 40-50 base pairs of dsRNA is necessary for TLR3 binding and dimerization. However, efficient TLR3 activation requires longer dsRNA and the molecular mechanism underlying its dsRNA length-dependent activation remains unknown. Here, we report cryo-electron microscopy analyses of TLR3 complexed with longer dsRNA. TLR3 dimers laterally form a higher multimeric complex along dsRNA, providing the basis for cooperative binding and efficient signal transduction. | ||||||||||||
履歴 |
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-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 7wm4.cif.gz | 559.1 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb7wm4.ent.gz | 462.6 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 7wm4.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/wm/7wm4 ftp://data.pdbj.org/pub/pdb/validation_reports/wm/7wm4 | HTTPS FTP |
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-関連構造データ
関連構造データ | 32599MC M: このデータのモデリングに利用したマップデータ C: 同じ文献を引用 (文献) |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-リンク
-集合体
登録構造単位 |
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1 |
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-要素
-タンパク質 , 1種, 4分子 CDEF
#1: タンパク質 | 分子量: 77365.852 Da / 分子数: 4 / 由来タイプ: 組換発現 / 由来: (組換発現) Mus musculus (ハツカネズミ) / 遺伝子: Tlr3 / 発現宿主: Homo sapiens (ヒト) / 参照: UniProt: Q99MB1 |
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-RNA鎖 , 2種, 2分子 AB
#2: RNA鎖 | 分子量: 25699.127 Da / 分子数: 1 / 由来タイプ: 合成 / 由来: (合成) synthetic construct (人工物) |
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#3: RNA鎖 | 分子量: 25676.088 Da / 分子数: 1 / 由来タイプ: 合成 / 由来: (合成) synthetic construct (人工物) |
-糖 , 3種, 40分子
#4: 多糖 | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta- ...beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose #5: 多糖 | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose #6: 糖 | ChemComp-NAG / |
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-詳細
研究の焦点であるリガンドがあるか | N |
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-実験情報
-実験
実験 | 手法: 電子顕微鏡法 |
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EM実験 | 試料の集合状態: PARTICLE / 3次元再構成法: 単粒子再構成法 |
-試料調製
構成要素 | 名称: Tetrameric TLR3 in complex with dsRNA (90 bp) / タイプ: COMPLEX / Entity ID: #1-#3 / 由来: MULTIPLE SOURCES |
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由来(天然) | 生物種: Mus musculus (ハツカネズミ) |
由来(組換発現) | 生物種: Homo sapiens (ヒト) |
緩衝液 | pH: 5.3 / 詳細: 25 mM MES-NaOH pH 5.3, 0.3 M NaCl |
試料 | 濃度: 0.2 mg/ml / 包埋: YES / シャドウイング: NO / 染色: NO / 凍結: YES |
EM embedding | Material: ice |
急速凍結 | 装置: FEI VITROBOT MARK IV / 凍結剤: ETHANE |
-電子顕微鏡撮影
顕微鏡 | モデル: JEOL CRYO ARM 300 |
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電子銃 | 電子線源: FIELD EMISSION GUN / 加速電圧: 300 kV / 照射モード: FLOOD BEAM |
電子レンズ | モード: BRIGHT FIELDBright-field microscopy / 最大 デフォーカス(公称値): 2400 nm / 最小 デフォーカス(公称値): 1400 nm |
撮影 | 電子線照射量: 50 e/Å2 / フィルム・検出器のモデル: GATAN K3 (6k x 4k) |
-解析
ソフトウェア | 名称: PHENIX / バージョン: 1.19.2_4158: / 分類: 精密化 | ||||||||||||||||||||||||
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CTF補正 | タイプ: NONE | ||||||||||||||||||||||||
3次元再構成 | 解像度: 3.2 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 粒子像の数: 274002 / 対称性のタイプ: POINT | ||||||||||||||||||||||||
拘束条件 |
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