+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-30294 | |||||||||
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タイトル | Cryo-EM structure of mouse TLR3 in complex with UNC93B1 | |||||||||
マップデータ | ||||||||||
試料 |
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キーワード | Toll-like receptors / UNC93B1 / MFS / IMMUNE SYSTEM | |||||||||
機能・相同性 | 機能・相同性情報 Trafficking and processing of endosomal TLR / type III interferon production / positive regulation of type III interferon production / response to dsRNA / T cell antigen processing and presentation / toll-like receptor 7 signaling pathway / regulation of dendritic cell cytokine production / inflammatory response to wounding / Toll-like receptor binding / toll-like receptor 3 signaling pathway ...Trafficking and processing of endosomal TLR / type III interferon production / positive regulation of type III interferon production / response to dsRNA / T cell antigen processing and presentation / toll-like receptor 7 signaling pathway / regulation of dendritic cell cytokine production / inflammatory response to wounding / Toll-like receptor binding / toll-like receptor 3 signaling pathway / necroptotic signaling pathway / toll-like receptor 9 signaling pathway / early phagosome / positive regulation of cytokine production involved in inflammatory response / positive regulation of macrophage cytokine production / cellular response to exogenous dsRNA / pattern recognition receptor activity / toll-like receptor signaling pathway / response to exogenous dsRNA / positive regulation of interferon-alpha production / antigen processing and presentation / positive regulation of type I interferon production / cellular response to interferon-beta / positive regulation of chemokine production / extrinsic apoptotic signaling pathway / JNK cascade / positive regulation of interleukin-12 production / positive regulation of interferon-beta production / positive regulation of interleukin-8 production / intracellular protein transport / positive regulation of JNK cascade / microglial cell activation / response to virus / cell morphogenesis / cellular response to type II interferon / cellular response to virus / defense response / cellular response to mechanical stimulus / positive regulation of interleukin-6 production / positive regulation of type II interferon production / positive regulation of non-canonical NF-kappaB signal transduction / male gonad development / positive regulation of angiogenesis / antigen processing and presentation of exogenous peptide antigen via MHC class II / positive regulation of tumor necrosis factor production / double-stranded RNA binding / MAPK cascade / transmembrane signaling receptor activity / cellular response to xenobiotic stimulus / signaling receptor activity / defense response to virus / positive regulation of canonical NF-kappaB signal transduction / lysosome / early endosome / endosome membrane / endosome / inflammatory response / positive regulation of apoptotic process / innate immune response / endoplasmic reticulum membrane / cell surface / endoplasmic reticulum / positive regulation of transcription by RNA polymerase II / identical protein binding / plasma membrane 類似検索 - 分子機能 | |||||||||
生物種 | Mus musculoides (ネズミ) / Mus musculus (ハツカネズミ) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.3 Å | |||||||||
データ登録者 | Ohto U / Ishida H | |||||||||
引用 | ジャーナル: Nat Struct Mol Biol / 年: 2021 タイトル: Cryo-EM structures of Toll-like receptors in complex with UNC93B1. 著者: Hanako Ishida / Jinta Asami / Zhikuan Zhang / Tomohiro Nishizawa / Hideki Shigematsu / Umeharu Ohto / Toshiyuki Shimizu / 要旨: Nucleic acid-sensing Toll-like receptors (TLRs) play a pivotal role in innate immunity by recognizing foreign DNA and RNA. Compartmentalization of these TLRs in the endosome limits their activation ...Nucleic acid-sensing Toll-like receptors (TLRs) play a pivotal role in innate immunity by recognizing foreign DNA and RNA. Compartmentalization of these TLRs in the endosome limits their activation by self-derived nucleic acids and reduces the possibility of autoimmune reactions. Although chaperone Unc-93 homolog B1, TLR signaling regulator (UNC93B1) is indispensable for the trafficking of TLRs from the endoplasmic reticulum to the endosome, mechanisms of UNC93B1-mediated TLR regulation remain largely unknown. Here, we report two cryo-EM structures of human and mouse TLR3-UNC93B1 complexes and a human TLR7-UNC93B1 complex. UNC93B1 exhibits structural similarity to the major facilitator superfamily transporters. Both TLRs interact with the UNC93B1 amino-terminal six-helix bundle through their transmembrane and luminal juxtamembrane regions, but the complexes of TLR3 and TLR7 with UNC93B1 differ in their oligomerization state. The structural information provided here should aid in designing compounds to combat autoimmune diseases. | |||||||||
履歴 |
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-構造の表示
ムービー |
ムービービューア |
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構造ビューア | EMマップ: SurfViewMolmilJmol/JSmol |
添付画像 |
-ダウンロードとリンク
-EMDBアーカイブ
マップデータ | emd_30294.map.gz | 23.5 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-30294-v30.xml emd-30294.xml | 11.3 KB 11.3 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_30294.png | 34.9 KB | ||
Filedesc metadata | emd-30294.cif.gz | 5.9 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-30294 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-30294 | HTTPS FTP |
-検証レポート
文書・要旨 | emd_30294_validation.pdf.gz | 533.3 KB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_30294_full_validation.pdf.gz | 532.8 KB | 表示 | |
XML形式データ | emd_30294_validation.xml.gz | 5.6 KB | 表示 | |
CIF形式データ | emd_30294_validation.cif.gz | 6.4 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30294 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30294 | HTTPS FTP |
-関連構造データ
-リンク
EMDBのページ | EMDB (EBI/PDBe) / EMDataResource |
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「今月の分子」の関連する項目 |
-マップ
ファイル | ダウンロード / ファイル: emd_30294.map.gz / 形式: CCP4 / 大きさ: 30.5 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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投影像・断面図 | 画像のコントロール
画像は Spider により作成 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.245 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
-試料の構成要素
-全体 : Complex of TLR3 and UNC93B1
全体 | 名称: Complex of TLR3 and UNC93B1 |
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要素 |
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-超分子 #1: Complex of TLR3 and UNC93B1
超分子 | 名称: Complex of TLR3 and UNC93B1 / タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#2 |
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由来(天然) | 生物種: Mus musculoides (ネズミ) |
-分子 #1: Toll-like receptor 3
分子 | 名称: Toll-like receptor 3 / タイプ: protein_or_peptide / ID: 1 / コピー数: 1 / 光学異性体: LEVO |
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由来(天然) | 生物種: Mus musculus (ハツカネズミ) |
分子量 | 理論値: 103.785797 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
配列 | 文字列: MKGCSSYLMY SFGGLLSLWI LLVSSTNQCT VRYNVADCSH LKLTHIPDDL PSNITVLNLT HNQLRRLPPT NFTRYSQLAI LDAGFNSIS KLEPELCQIL PLLKVLNLQH NELSQISDQT FVFCTNLTEL DLMSNSIHKI KSNPFKNQKN LIKLDLSHNG L SSTKLGTG ...文字列: MKGCSSYLMY SFGGLLSLWI LLVSSTNQCT VRYNVADCSH LKLTHIPDDL PSNITVLNLT HNQLRRLPPT NFTRYSQLAI LDAGFNSIS KLEPELCQIL PLLKVLNLQH NELSQISDQT FVFCTNLTEL DLMSNSIHKI KSNPFKNQKN LIKLDLSHNG L SSTKLGTG VQLENLQELL LAKNKILALR SEELEFLGNS SLRKLDLSSN PLKEFSPGCF QTIGKLFALL LNNAQLNPHL TE KLCWELS NTSIQNLSLA NNQLLATSES TFSGLKWTNL TQLDLSYNNL HDVGNGSFSY LPSLRYLSLE YNNIQRLSPR SFY GLSNLR YLSLKRAFTK QSVSLASHPN IDDFSFQWLK YLEYLNMDDN NIPSTKSNTF TGLVSLKYLS LSKTFTSLQT LTNE TFVSL AHSPLLTLNL TKNHISKIAN GTFSWLGQLR ILDLGLNEIE QKLSGQEWRG LRNIFEIYLS YNKYLQLSTS SFALV PSLQ RLMLRRVALK NVDISPSPFR PLRNLTILDL SNNNIANINE DLLEGLENLE ILDFQHNNLA RLWKRANPGG PVNFLK GLS HLHILNLESN GLDEIPVGVF KNLFELKSIN LGLNNLNKLE PFIFDDQTSL RSLNLQKNLI TSVEKDVFGP PFQNLNS LD MRFNPFDCTC ESISWFVNWI NQTHTNISEL STHYLCNTPH HYYGFPLKLF DTSSCKDSAP FELLFIISTS MLLVFILV V LLIHIEGWRI SFYWNVSVHR ILGFKEIDTQ AEQFEYTAYI IHAHKDRDWV WEHFSPMEEQ DQSLKFCLEE RDFEAGVLG LEAIVNSIKR SRKIIFVITH HLLKDPLCRR FKVHHAVQQA IEQNLDSIIL IFLQNIPDYK LNHALCLRRG MFKSHCILNW PVQKERINA FHHKLQVALG SRNSAH UniProtKB: Toll-like receptor 3 |
-分子 #2: Protein unc-93 homolog B1
分子 | 名称: Protein unc-93 homolog B1 / タイプ: protein_or_peptide / ID: 2 / コピー数: 1 / 光学異性体: LEVO |
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由来(天然) | 生物種: Mus musculus (ハツカネズミ) |
分子量 | 理論値: 67.03925 KDa |
組換発現 | 生物種: Homo sapiens (ヒト) |
配列 | 文字列: MEVEPPLYPV AGAAGPQGDE DRHGVPDGPE APLDELVGAY PNYNEEEEER RYYRRKRLGV VKNVLAASTG VTLTYGVYLG LLQMQLILH YDETYREVKY GNMGLPDIDS KMLMGINVTP IAALLYTPVL IRFFGTKWMM FLAVGIYALF VSTNYWERYY T LVPSAVAL ...文字列: MEVEPPLYPV AGAAGPQGDE DRHGVPDGPE APLDELVGAY PNYNEEEEER RYYRRKRLGV VKNVLAASTG VTLTYGVYLG LLQMQLILH YDETYREVKY GNMGLPDIDS KMLMGINVTP IAALLYTPVL IRFFGTKWMM FLAVGIYALF VSTNYWERYY T LVPSAVAL GMAIVPLWAS MGNYITRMSQ KYYEYSHYKE QDEQGPQQRP PRGSHAPYLL VFQAIFYSFF HLSFACAQLP MI YFLNNYL YDLNHTLINV QSCGTKSQGI LNGFNKTVLR TLPRSKNLIV VESVLMAVAF LAMLMVLGLC GAAYRPTEEI DLR SVGWGN IFQLPFKHVR DFRLRHLVPF FIYSGFEVLF ACTGFALGYG VCSMGLERLA YLLIAYSLGA SASSVLGLLG LWLP RSVPL VAGAGLHLLL TLSLFFWAPA PRVLQHSWIF YFVAALWGVG SALNKTGLST LLGILYEDKE RQDFIFTIYH WWQAV AIFV VYLGSSLPMK AKLAVLLVTL VAAAASYLWM EQKLQQGLVP RQPRIPKPQH KVRGYRYLEE DNSDESDMEG EQGQGD CAE DEAPQAGPLG AEPAGPCRKP CPYEQALGGD GPEEQ UniProtKB: Protein unc-93 homolog B1 |
-分子 #5: 2-acetamido-2-deoxy-beta-D-glucopyranose
分子 | 名称: 2-acetamido-2-deoxy-beta-D-glucopyranose / タイプ: ligand / ID: 5 / コピー数: 9 / 式: NAG |
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分子量 | 理論値: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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解析 | 単粒子再構成法 |
試料の集合状態 | particle |
-試料調製
緩衝液 | pH: 7.5 / 詳細: 25 mM Hepes-NaOH, pH 7.5, 0.2 M NaCl, and 0.01% GDN |
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凍結 | 凍結剤: ETHANE |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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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: 60.0 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
電子光学系 | 照射モード: OTHER / 撮影モード: BRIGHT FIELD |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
初期モデル | モデルのタイプ: PDB ENTRY PDBモデル - PDB ID: |
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最終 再構成 | 解像度のタイプ: BY AUTHOR / 解像度: 3.3 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用した粒子像数: 72000 |
初期 角度割当 | タイプ: ANGULAR RECONSTITUTION |
最終 角度割当 | タイプ: ANGULAR RECONSTITUTION |