+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-23665 | |||||||||
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タイトル | Structural basis for SARS-CoV-2 envelope protein in recognition of human cell junction protein PALS1 | |||||||||
マップデータ | Cryosparc non-uniform refinement without sharpening | |||||||||
試料 |
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キーワード | SARS-CoV-2 envelope protein / PDZ-binding motif / complex / pathogen-host interaction / CELL ADHESION-VIRAL PROTEIN complex | |||||||||
機能・相同性 | 機能・相同性情報 disruption of cellular anatomical structure in another organism / protein localization to myelin sheath abaxonal region / SARS-CoV-1 targets PDZ proteins in cell-cell junction / viral budding from Golgi membrane / establishment or maintenance of polarity of embryonic epithelium / myelin assembly / morphogenesis of an epithelial sheet / Tight junction interactions / SARS-CoV-2 targets PDZ proteins in cell-cell junction / cytoplasmic capsid assembly ...disruption of cellular anatomical structure in another organism / protein localization to myelin sheath abaxonal region / SARS-CoV-1 targets PDZ proteins in cell-cell junction / viral budding from Golgi membrane / establishment or maintenance of polarity of embryonic epithelium / myelin assembly / morphogenesis of an epithelial sheet / Tight junction interactions / SARS-CoV-2 targets PDZ proteins in cell-cell junction / cytoplasmic capsid assembly / regulation of transforming growth factor beta receptor signaling pathway / lateral loop / myelin sheath adaxonal region / Regulation of gap junction activity / Schmidt-Lanterman incisure / establishment or maintenance of epithelial cell apical/basal polarity / peripheral nervous system myelin maintenance / apical junction complex / generation of neurons / central nervous system neuron development / endoplasmic reticulum-Golgi intermediate compartment / host cell Golgi membrane / bicellular tight junction / Maturation of protein E / endoplasmic reticulum-Golgi intermediate compartment membrane / monoatomic ion channel activity / protein localization to plasma membrane / adherens junction / cerebral cortex development / gene expression / perikaryon / Translation of Structural Proteins / Virion Assembly and Release / Induction of Cell-Cell Fusion / structural constituent of virion / Attachment and Entry / apical plasma membrane / protein domain specific binding / axon / apoptotic process / SARS-CoV-2 activates/modulates innate and adaptive immune responses / virion membrane / Golgi apparatus / protein-containing complex / extracellular exosome / ATP binding / identical protein binding / membrane / plasma membrane / cytoplasm 類似検索 - 分子機能 | |||||||||
生物種 | Homo sapiens (ヒト) / Severe acute respiratory syndrome coronavirus 2 (ウイルス) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.65 Å | |||||||||
データ登録者 | Liu Q / Chai J | |||||||||
引用 | ジャーナル: Nat Commun / 年: 2021 タイトル: Structural basis for SARS-CoV-2 envelope protein recognition of human cell junction protein PALS1. 著者: Jin Chai / Yuanheng Cai / Changxu Pang / Liguo Wang / Sean McSweeney / John Shanklin / Qun Liu / 要旨: The COVID-19 pandemic, caused by the SARS-CoV-2 virus, has created global health and economic emergencies. SARS-CoV-2 viruses promote their own spread and virulence by hijacking human proteins, which ...The COVID-19 pandemic, caused by the SARS-CoV-2 virus, has created global health and economic emergencies. SARS-CoV-2 viruses promote their own spread and virulence by hijacking human proteins, which occurs through viral protein recognition of human targets. To understand the structural basis for SARS-CoV-2 viral-host protein recognition, here we use cryo-electron microscopy (cryo-EM) to determine a complex structure of the human cell junction protein PALS1 and SARS-CoV-2 viral envelope (E) protein. Our reported structure shows that the E protein C-terminal DLLV motif recognizes a pocket formed exclusively by hydrophobic residues from the PDZ and SH3 domains of PALS1. Our structural analysis provides an explanation for the observation that the viral E protein recruits PALS1 from lung epithelial cell junctions. In addition, our structure provides novel targets for peptide- and small-molecule inhibitors that could block the PALS1-E interactions to reduce E-mediated virulence. | |||||||||
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_23665.map.gz | 31.8 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-23665-v30.xml emd-23665.xml | 9.9 KB 9.9 KB | 表示 表示 | EMDBヘッダ |
FSC (解像度算出) | emd_23665_fsc.xml | 6.4 KB | 表示 | FSCデータファイル |
画像 | emd_23665.png | 152.4 KB | ||
Filedesc metadata | emd-23665.cif.gz | 5.2 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-23665 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-23665 | HTTPS FTP |
-検証レポート
文書・要旨 | emd_23665_validation.pdf.gz | 474.8 KB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_23665_full_validation.pdf.gz | 474.3 KB | 表示 | |
XML形式データ | emd_23665_validation.xml.gz | 9.8 KB | 表示 | |
CIF形式データ | emd_23665_validation.cif.gz | 12.5 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23665 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23665 | 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_23665.map.gz / 形式: CCP4 / 大きさ: 64 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | Cryosparc non-uniform refinement without sharpening | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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: 0.684 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 structure of SARS-CoV-2 envelope protein Ec18 and human P...
全体 | 名称: Complex structure of SARS-CoV-2 envelope protein Ec18 and human PALS1 PSG domains |
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要素 |
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-超分子 #1: Complex structure of SARS-CoV-2 envelope protein Ec18 and human P...
超分子 | 名称: Complex structure of SARS-CoV-2 envelope protein Ec18 and human PALS1 PSG domains タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: all |
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由来(天然) | 生物種: Homo sapiens (ヒト) |
-分子 #1: MAGUK p55 subfamily member 5
分子 | 名称: MAGUK p55 subfamily member 5 / タイプ: protein_or_peptide / ID: 1 / コピー数: 2 / 光学異性体: LEVO |
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由来(天然) | 生物種: Homo sapiens (ヒト) |
分子量 | 理論値: 44.780504 KDa |
組換発現 | 生物種: Escherichia coli (大腸菌) |
配列 | 文字列: SNAPITDERV YESIGQYGGE TVKIVRIEKA RDIPLGATVR NEMDSVIISR IVKGGAAEKS GLLHEGDEVL EINGIEIRGK DVNEVFDLL SDMHGTLTFV LIPSQQIKPP PAKETVIHVK AHFDYDPSDD PYVPCRELGL SFQKGDILHV ISQEDPNWWQ A YREGDEDN ...文字列: SNAPITDERV YESIGQYGGE TVKIVRIEKA RDIPLGATVR NEMDSVIISR IVKGGAAEKS GLLHEGDEVL EINGIEIRGK DVNEVFDLL SDMHGTLTFV LIPSQQIKPP PAKETVIHVK AHFDYDPSDD PYVPCRELGL SFQKGDILHV ISQEDPNWWQ A YREGDEDN QPLAGLVPGK EEILTYEEMS LYHQPANRKR PIILIGPQNC GQNELRQRLM NKEKDRFASA VPHTTRSRRD QE VAGRDYH FVSRQAFEAD IAAGKFIEHG EFEKNLYGTS IDSVRQVINS GKICLLSLRT QSLKTLRNSD LKPYIIFIAP PSQ ERLRAL LAKEGKNPKP EELREIIEKT REMEQNNGHY FDTAIVNSDL DKAYQELLRL INKLDTEPQW VPSTWLR UniProtKB: Protein PALS1, Protein PALS1 |
-分子 #2: Envelope small membrane protein
分子 | 名称: Envelope small membrane protein / 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: Severe acute respiratory syndrome coronavirus 2 (ウイルス) |
分子量 | 理論値: 2.062395 KDa |
配列 | 文字列: VYSRVKNLNS SRVPDLLV UniProtKB: Envelope small membrane protein |
-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 |
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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 BIOQUANTUM (6k x 4k) 平均電子線量: 64.0 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 |