- EMDB-10863: Structure of the SARS-CoV-2 spike S1 protein in complex with CR30... -
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基本情報
登録情報
データベース: EMDB / ID: EMD-10863
タイトル
Structure of the SARS-CoV-2 spike S1 protein in complex with CR3022 Fab
マップデータ
The map has strongly anisotropic resolution. RBD and CR3022 Fab are fitted. The S1 N-terminal domains are not well defined and can be viewed at lower contour level, 0.345
試料
複合体: Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab
複合体: RBD
タンパク質・ペプチド: Spike glycoprotein
複合体: Immunoblobulin heavy chain
タンパク質・ペプチド: IgG H chain
複合体: Immunoblobulin light chain
タンパク質・ペプチド: IgG L chain
機能・相同性
機能・相同性情報
Maturation of spike protein / viral translation / Translation of Structural Proteins / Virion Assembly and Release / host cell surface / host extracellular space / suppression by virus of host tetherin activity / Induction of Cell-Cell Fusion / structural constituent of virion / entry receptor-mediated virion attachment to host cell ...Maturation of spike protein / viral translation / Translation of Structural Proteins / Virion Assembly and Release / host cell surface / host extracellular space / suppression by virus of host tetherin activity / Induction of Cell-Cell Fusion / structural constituent of virion / entry receptor-mediated virion attachment to host cell / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / receptor-mediated endocytosis of virus by host cell / Attachment and Entry / membrane fusion / positive regulation of viral entry into host cell / receptor-mediated virion attachment to host cell / receptor ligand activity / symbiont-mediated suppression of host innate immune response / host cell surface receptor binding / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / SARS-CoV-2 activates/modulates innate and adaptive immune responses / host cell plasma membrane / virion membrane / identical protein binding / membrane / plasma membrane 類似検索 - 分子機能
ジャーナル: Cell Host Microbe / 年: 2020 タイトル: Neutralization of SARS-CoV-2 by Destruction of the Prefusion Spike. 著者: Jiandong Huo / Yuguang Zhao / Jingshan Ren / Daming Zhou / Helen M E Duyvesteyn / Helen M Ginn / Loic Carrique / Tomas Malinauskas / Reinis R Ruza / Pranav N M Shah / Tiong Kit Tan / Pramila ...著者: Jiandong Huo / Yuguang Zhao / Jingshan Ren / Daming Zhou / Helen M E Duyvesteyn / Helen M Ginn / Loic Carrique / Tomas Malinauskas / Reinis R Ruza / Pranav N M Shah / Tiong Kit Tan / Pramila Rijal / Naomi Coombes / Kevin R Bewley / Julia A Tree / Julika Radecke / Neil G Paterson / Piyada Supasa / Juthathip Mongkolsapaya / Gavin R Screaton / Miles Carroll / Alain Townsend / Elizabeth E Fry / Raymond J Owens / David I Stuart / 要旨: There are as yet no licensed therapeutics for the COVID-19 pandemic. The causal coronavirus (SARS-CoV-2) binds host cells via a trimeric spike whose receptor binding domain (RBD) recognizes ...There are as yet no licensed therapeutics for the COVID-19 pandemic. The causal coronavirus (SARS-CoV-2) binds host cells via a trimeric spike whose receptor binding domain (RBD) recognizes angiotensin-converting enzyme 2, initiating conformational changes that drive membrane fusion. We find that the monoclonal antibody CR3022 binds the RBD tightly, neutralizing SARS-CoV-2, and report the crystal structure at 2.4 Å of the Fab/RBD complex. Some crystals are suitable for screening for entry-blocking inhibitors. The highly conserved, structure-stabilizing CR3022 epitope is inaccessible in the prefusion spike, suggesting that CR3022 binding facilitates conversion to the fusion-incompetent post-fusion state. Cryogenic electron microscopy (cryo-EM) analysis confirms that incubation of spike with CR3022 Fab leads to destruction of the prefusion trimer. Presentation of this cryptic epitope in an RBD-based vaccine might advantageously focus immune responses. Binders at this epitope could be useful therapeutically, possibly in synergy with an antibody that blocks receptor attachment.
ダウンロード / ファイル: emd_10863.map.gz / 形式: CCP4 / 大きさ: 600.7 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
注釈
The map has strongly anisotropic resolution. RBD and CR3022 Fab are fitted. The S1 N-terminal domains are not well defined and can be viewed at lower contour level, 0.345
ボクセルのサイズ
X=Y=Z: 0.83 Å
密度
表面レベル
登録者による: 0.486 / ムービー #1: 0.4
最小 - 最大
-2.0657659 - 3.0164948
平均 (標準偏差)
0.0012673322 (±0.02615307)
対称性
空間群: 1
詳細
EMDB XML:
マップ形状
Axis order
X
Y
Z
Origin
0
0
0
サイズ
540
540
540
Spacing
540
540
540
セル
A=B=C: 448.19998 Å α=β=γ: 90.0 °
CCP4マップ ヘッダ情報:
mode
Image stored as Reals
Å/pix. X/Y/Z
0.83
0.83
0.83
M x/y/z
540
540
540
origin x/y/z
0.000
0.000
0.000
length x/y/z
448.200
448.200
448.200
α/β/γ
90.000
90.000
90.000
MAP C/R/S
1
2
3
start NC/NR/NS
0
0
0
NC/NR/NS
540
540
540
D min/max/mean
-2.066
3.016
0.001
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添付データ
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試料の構成要素
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全体 : Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab
全体
名称: Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab
要素
複合体: Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab
複合体: RBD
タンパク質・ペプチド: Spike glycoprotein
複合体: Immunoblobulin heavy chain
タンパク質・ペプチド: IgG H chain
複合体: Immunoblobulin light chain
タンパク質・ペプチド: IgG L chain
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超分子 #1: Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab
超分子
名称: Binary complex of SARS-CoV-2 spike S1 with CR3022 Fab タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: all