+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-21377 | |||||||||
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タイトル | Cryo-electron microscopy structure of mouse coronavirus spike protein complexed with its murine receptor | |||||||||
マップデータ | CryoEM density map of MHV spike ectodomain complex with its receptor CEACAM1a | |||||||||
試料 |
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機能・相同性 | 機能・相同性情報 Fibronectin matrix formation / granulocyte colony-stimulating factor receptor binding / positive regulation of homophilic cell adhesion / Post-translational modification: synthesis of GPI-anchored proteins / regulation of endothelial cell differentiation / insulin receptor internalization / negative regulation of cytotoxic T cell degranulation / granulocyte colony-stimulating factor signaling pathway / regulation of homophilic cell adhesion / regulation of sprouting angiogenesis ...Fibronectin matrix formation / granulocyte colony-stimulating factor receptor binding / positive regulation of homophilic cell adhesion / Post-translational modification: synthesis of GPI-anchored proteins / regulation of endothelial cell differentiation / insulin receptor internalization / negative regulation of cytotoxic T cell degranulation / granulocyte colony-stimulating factor signaling pathway / regulation of homophilic cell adhesion / regulation of sprouting angiogenesis / regulation of epidermal growth factor receptor signaling pathway / regulation of blood vessel remodeling / negative regulation of hepatocyte proliferation / negative regulation of natural killer cell mediated cytotoxicity directed against tumor cell target / negative regulation of lipid biosynthetic process / bile acid transmembrane transporter activity / negative regulation of T cell mediated cytotoxicity / regulation of endothelial cell migration / negative regulation of granulocyte differentiation / regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / insulin catabolic process / Cell surface interactions at the vascular wall / common myeloid progenitor cell proliferation / Toll-like receptor binding / negative regulation of interleukin-1 production / negative regulation of fatty acid biosynthetic process / positive regulation of vasculogenesis / cell-cell adhesion via plasma-membrane adhesion molecules / regulation of immune system process / negative regulation of platelet aggregation / cell-cell junction organization / bile acid and bile salt transport / negative regulation of vascular permeability / negative regulation of bone resorption / wound healing, spreading of cells / ciliary membrane / negative regulation of cytokine production / microvillus membrane / negative regulation of T cell receptor signaling pathway / blood vessel development / negative regulation of osteoclast differentiation / lateral plasma membrane / regulation of ERK1 and ERK2 cascade / negative regulation of T cell proliferation / basal plasma membrane / transport vesicle / Neutrophil degranulation / protein tyrosine kinase binding / regulation of cell growth / adherens junction / negative regulation of protein kinase activity / cellular response to insulin stimulus / endocytosis involved in viral entry into host cell / cell junction / cell-cell junction / virus receptor activity / host cell Golgi apparatus / membrane => GO:0016020 / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / calmodulin binding / receptor-mediated virion attachment to host cell / protein dimerization activity / cell adhesion / apical plasma membrane / external side of plasma membrane / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / protein kinase binding / host cell plasma membrane / virion membrane / cell surface / signal transduction / protein homodimerization activity / identical protein binding / membrane / plasma membrane 類似検索 - 分子機能 | |||||||||
生物種 | Murine coronavirus (strain A59) (ウイルス) / 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: 3.94 Å | |||||||||
データ登録者 | Shang J / Wan YS / Liu C / Yount B / Gully K / Yang Y / Auerbach A / Peng GQ / Baric R / Li F | |||||||||
資金援助 | 米国, 1件
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引用 | ジャーナル: PLoS Pathog / 年: 2020 タイトル: Structure of mouse coronavirus spike protein complexed with receptor reveals mechanism for viral entry. 著者: Jian Shang / Yushun Wan / Chang Liu / Boyd Yount / Kendra Gully / Yang Yang / Ashley Auerbach / Guiqing Peng / Ralph Baric / Fang Li / 要旨: Coronaviruses recognize a variety of receptors using different domains of their envelope-anchored spike protein. How these diverse receptor recognition patterns affect viral entry is unknown. Mouse ...Coronaviruses recognize a variety of receptors using different domains of their envelope-anchored spike protein. How these diverse receptor recognition patterns affect viral entry is unknown. Mouse hepatitis coronavirus (MHV) is the only known coronavirus that uses the N-terminal domain (NTD) of its spike to recognize a protein receptor, CEACAM1a. Here we determined the cryo-EM structure of MHV spike complexed with mouse CEACAM1a. The trimeric spike contains three receptor-binding S1 heads sitting on top of a trimeric membrane-fusion S2 stalk. Three receptor molecules bind to the sides of the spike trimer, where three NTDs are located. Receptor binding induces structural changes in the spike, weakening the interactions between S1 and S2. Using protease sensitivity and negative-stain EM analyses, we further showed that after protease treatment of the spike, receptor binding facilitated the dissociation of S1 from S2, allowing S2 to transition from pre-fusion to post-fusion conformation. Together these results reveal a new role of receptor binding in MHV entry: in addition to its well-characterized role in viral attachment to host cells, receptor binding also induces the conformational change of the spike and hence the fusion of viral and host membranes. Our study provides new mechanistic insight into coronavirus entry and highlights the diverse entry mechanisms used by different viruses. | |||||||||
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_21377.map.gz | 117.1 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-21377-v30.xml emd-21377.xml | 14.3 KB 14.3 KB | 表示 表示 | EMDBヘッダ |
FSC (解像度算出) | emd_21377_fsc.xml | 11.4 KB | 表示 | FSCデータファイル |
画像 | emd_21377.png | 134.8 KB | ||
マスクデータ | emd_21377_msk_1.map | 125 MB | マスクマップ | |
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-21377 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-21377 | HTTPS FTP |
-検証レポート
文書・要旨 | emd_21377_validation.pdf.gz | 500 KB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_21377_full_validation.pdf.gz | 499.6 KB | 表示 | |
XML形式データ | emd_21377_validation.xml.gz | 12.1 KB | 表示 | |
CIF形式データ | emd_21377_validation.cif.gz | 16.1 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-21377 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-21377 | 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_21377.map.gz / 形式: CCP4 / 大きさ: 125 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | CryoEM density map of MHV spike ectodomain complex with its receptor CEACAM1a | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.06 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
-マスク #1
ファイル | emd_21377_msk_1.map | ||||||||||||
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投影像・断面図 |
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密度ヒストグラム |
-試料の構成要素
-全体 : MHV Spike and CEACAM1a Complex
全体 | 名称: MHV Spike and CEACAM1a Complex |
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要素 |
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-超分子 #1: MHV Spike and CEACAM1a Complex
超分子 | 名称: MHV Spike and CEACAM1a Complex / 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: Murine coronavirus (strain A59) (ウイルス) / 株: A59 |
-超分子 #2: Spike glycoprotein
超分子 | 名称: Spike glycoprotein / 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: Mus musculus (ハツカネズミ) |
組換発現 | 生物種: Baculovirus expression vector pFastBac1-HM (ウイルス) |
-超分子 #3: Carcinoembryonic antigen-related cell adhesion molecule 1
超分子 | 名称: Carcinoembryonic antigen-related cell adhesion molecule 1 タイプ: complex / ID: 3 / 親要素: 1 / 含まれる分子: #2 |
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-分子 #1: Spike glycoprotein
分子 | 名称: Spike glycoprotein / タイプ: protein_or_peptide / ID: 1 / コピー数: 3 / 光学異性体: LEVO |
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由来(天然) | 生物種: Murine coronavirus (strain A59) (ウイルス) / 株: A59 |
分子量 | 理論値: 141.118797 KDa |
組換発現 | 生物種: Baculovirus expression vector pFastBac1-HM (ウイルス) |
配列 | 文字列: MKFLVNVALV FMVVYISYIY AYIGDFRCIQ LVNSNGANVS APSISTETVE VSQGLGTYYV LDRVYLNATL LLTGYYPVDG SKFRNLALR GTNSVSLSWF QPPYLNQFND GIFAKVQNLK TSTPSGATAY FPTIVIGSLF GYTSYTVVIE PYNGVIMASV C QYTICQLP ...文字列: MKFLVNVALV FMVVYISYIY AYIGDFRCIQ LVNSNGANVS APSISTETVE VSQGLGTYYV LDRVYLNATL LLTGYYPVDG SKFRNLALR GTNSVSLSWF QPPYLNQFND GIFAKVQNLK TSTPSGATAY FPTIVIGSLF GYTSYTVVIE PYNGVIMASV C QYTICQLP YTDCKPNTNG NKLIGFWHTD VKPPICVLKR NFTLNVNADA FYFHFYQHGG TFYAYYADKP SATTFLFSVY IG DILTQYY VLPFICNPTA GSTFAPRYWV TPLVKRQYLF NFNQKGVITS AVDCASSYTS EIKCKTQSML PSTGVYELSG YTV QPVGVV YRRVANLPAC NIEEWLTARS VPSPLNWERK TFQNCNFNLS SLLRYVQAES LFCNNIDASK VYGRCFGSIS VDKF AVPRS RQVDLQLGNS GFLQTANYKI DTAATSCQLH YTLPKNNVTI NNHNPSSWNR RYGFNDAGVF GKNQHDVVYA QQCFT VRSS FCPCAQPDIV SPCTTQTKPK SAFVNVGDHC EGLGVLEDNC GNADPHKGCI CANNSFIGWS HDTCLVNDRC QIFANI LLN GINSGTTCST DLQLPNTEVV TGICVKYDLY GITGQGVFKE VKADYYNSWQ TLLYDVNGNL NGFRDLTTNK TYTIRSC YS GRVSAAFHKD APEPALLYRN INCSYVFSNN ISREENPLNY FDSYLGCVVN ADNRTDEALP NCDLRMGAGL CVDYSKSR R AHRSVSTGYR LTTFEPYTPM LVNDSVQSVD GLYEMQIPTN FTIGHHEEFI QTRSPKVTID CAAFVCGDNT ACRQQLVEY GSFCVNVNAI LNEVNNLLDN MQLQVASALM QGVTISSRLP DGISGPIDDI NFSPLLGCIG STCAEDGNGP SAIRGRSAIE DLLFDKVKL SDVGFVEAYN NCTGGQEVRD LLCVQSFNGI KVLPPVLSES QISGYTTGAT AAAMFPPWSA AAGVPFSLSV Q YRINGLGV TMNVLSENQK MIASAFNNAL GAIQDGFDAT NSALGKIQSV VNANAEALNN LLNQLSNRFG AISASLQEIL TR LEAVEAK AQIDRLINGR LTALNAYISK QLSDSTLIKV SAAQAIEKVN ECVKSQTTRI NFCGNGNHIL SLVQNAPYGL YFI HFSYVP ISFTTANVSP GLCISGDRGL APKAGYFVQD DGEWKFTGSS YYYPEPITDK NSVIMSSCAV NYTKAPEVFL NTSI PNPPD FKEELDKWFK NQTSIAPDLS LDFEKLNVTL IKRMKQIEDK IEEIESKQKK IENEIARIKK IKHHHHHHHH |
-分子 #2: Carcinoembryonic antigen-related cell adhesion molecule 1
分子 | 名称: Carcinoembryonic antigen-related cell adhesion molecule 1 タイプ: protein_or_peptide / ID: 2 / コピー数: 3 / 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: 23.678691 KDa |
組換発現 | 生物種: Baculovirus expression vector pFastBac1-HM (ウイルス) |
配列 | 文字列: EVTIEAVPPQ VAEDNNVLLL VHNLPLALGA FAWYKGNTTA IDKEIARFVP NSNMNFTGQA YSGREIIYSN GSLLFQMITM KDMGVYTLD MTDENYRRTQ ATVRFHVHQP VTQPFLQVTN TTVKELDSVT LTCLSNDIGA NIQWLFNSQS LQLTERMTLS Q NNSILRID ...文字列: EVTIEAVPPQ VAEDNNVLLL VHNLPLALGA FAWYKGNTTA IDKEIARFVP NSNMNFTGQA YSGREIIYSN GSLLFQMITM KDMGVYTLD MTDENYRRTQ ATVRFHVHQP VTQPFLQVTN TTVKELDSVT LTCLSNDIGA NIQWLFNSQS LQLTERMTLS Q NNSILRID PIKREDAGEY QCEISNPVSV RRSNSIKLDI IFDPHHHHHH |
-分子 #3: 2-acetamido-2-deoxy-beta-D-glucopyranose
分子 | 名称: 2-acetamido-2-deoxy-beta-D-glucopyranose / タイプ: ligand / ID: 3 / コピー数: 12 / 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
濃度 | 0.3 mg/mL | ||||||
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緩衝液 | pH: 7.4 / 構成要素:
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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 K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / 平均電子線量: 77.0 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: FLOOD BEAM / 撮影モード: BRIGHT FIELD |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |