EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	The antigenic anatomy of SARS-CoV-2 receptor binding domain.
ジャーナル・号・ページ	Cell, Vol. 184, Issue 8, Page 2183-2200.e22, Year 2021
掲載日	2021年4月15日
著者	Wanwisa Dejnirattisai / Daming Zhou / Helen M Ginn / Helen M E Duyvesteyn / Piyada Supasa / James Brett Case / Yuguang Zhao / Thomas S Walter / Alexander J Mentzer / Chang Liu / Beibei Wang / Guido C Paesen / Jose Slon-Campos / César López-Camacho / Natasha M Kafai / Adam L Bailey / Rita E Chen / Baoling Ying / Craig Thompson / Jai Bolton / Alex Fyfe / Sunetra Gupta / Tiong Kit Tan / Javier Gilbert-Jaramillo / William James / Michael Knight / Miles W Carroll / Donal Skelly / Christina Dold / Yanchun Peng / Robert Levin / Tao Dong / Andrew J Pollard / Julian C Knight / Paul Klenerman / Nigel Temperton / David R Hall / Mark A Williams / Neil G Paterson / Felicity K R Bertram / C Alistair Siebert / Daniel K Clare / Andrew Howe / Julika Radecke / Yun Song / Alain R Townsend / Kuan-Ying A Huang / Elizabeth E Fry / Juthathip Mongkolsapaya / Michael S Diamond / Jingshan Ren / David I Stuart / Gavin R Screaton /
PubMed 要旨	Antibodies are crucial to immune protection against SARS-CoV-2, with some in emergency use as therapeutics. Here, we identify 377 human monoclonal antibodies (mAbs) recognizing the virus spike and ...Antibodies are crucial to immune protection against SARS-CoV-2, with some in emergency use as therapeutics. Here, we identify 377 human monoclonal antibodies (mAbs) recognizing the virus spike and focus mainly on 80 that bind the receptor binding domain (RBD). We devise a competition data-driven method to map RBD binding sites. We find that although antibody binding sites are widely dispersed, neutralizing antibody binding is focused, with nearly all highly inhibitory mAbs (IC < 0.1 μg/mL) blocking receptor interaction, except for one that binds a unique epitope in the N-terminal domain. Many of these neutralizing mAbs use public V-genes and are close to germline. We dissect the structural basis of recognition for this large panel of antibodies through X-ray crystallography and cryoelectron microscopy of 19 Fab-antigen structures. We find novel binding modes for some potently inhibitory antibodies and demonstrate that strongly neutralizing mAbs protect, prophylactically or therapeutically, in animal models.
リンク	Cell / PubMed:33756110 / PubMed Central
手法	EM (単粒子) / X線回折
解像度	2.04 - 7.3 Å
構造データ	12274 7nd3 EMDB-12274, PDB-7nd3: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab 手法: EM (単粒子) / 解像度: 3.7 Å 12275 7nd4 EMDB-12275, PDB-7nd4: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-88 Fab 手法: EM (単粒子) / 解像度: 3.6 Å 12276 7nd5 EMDB-12276, PDB-7nd5: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-150 Fab 手法: EM (単粒子) / 解像度: 3.4 Å 12277 7nd6 EMDB-12277, PDB-7nd6: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab 手法: EM (単粒子) / 解像度: 7.3 Å 12278 7nd7 EMDB-12278, PDB-7nd7: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-316 Fab 手法: EM (単粒子) / 解像度: 3.6 Å 12279 7nd8 EMDB-12279, PDB-7nd8: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-384 Fab 手法: EM (単粒子) / 解像度: 3.5 Å 12280 7nd9 EMDB-12280, PDB-7nd9: EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-253H55L Fab 手法: EM (単粒子) / 解像度: 2.8 Å 12281 7nda EMDB-12281, PDB-7nda: EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-253H55L Fab 手法: EM (単粒子) / 解像度: 3.3 Å 12282 7ndb EMDB-12282, PDB-7ndb: EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-253H165L Fab 手法: EM (単粒子) / 解像度: 4.6 Å 12283 7ndc EMDB-12283, PDB-7ndc: EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-159 手法: EM (単粒子) / 解像度: 4.1 Å 12284 7ndd EMDB-12284, PDB-7ndd: EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-159 手法: EM (単粒子) / 解像度: 4.2 Å PDB-7beh: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-316 Fab 手法: X-RAY DIFFRACTION / 解像度: 2.3 Å PDB-7bei: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-150 Fab 手法: X-RAY DIFFRACTION / 解像度: 2.3 Å PDB-7bej: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-158 Fab (crystal form 1) 手法: X-RAY DIFFRACTION / 解像度: 2.42 Å PDB-7bek: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-158 Fab (crystal form 2) 手法: X-RAY DIFFRACTION / 解像度: 2.04 Å PDB-7bel: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in a ternary complex with COVOX-88 and COVOX-45 Fabs 手法: X-RAY DIFFRACTION / 解像度: 2.53 Å PDB-7bem: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-269 scFv 手法: X-RAY DIFFRACTION / 解像度: 2.52 Å PDB-7ben: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in a ternary complex with COVOX-253 and COVOX-75 Fabs 手法: X-RAY DIFFRACTION / 解像度: 2.5 Å PDB-7beo: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in a ternary complex with COVOX-253H55L and COVOX-75 Fabs 手法: X-RAY DIFFRACTION / 解像度: 3.19 Å PDB-7bep: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in a ternary complex with COVOX-384 and S309 Fabs 手法: X-RAY DIFFRACTION / 解像度: 2.61 Å
化合物	ChemComp-GOL: GLYCEROL / グリセロ-ル / グリセリン ChemComp-TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL / トリス(ヒドロキシメチル)メチルアンモニウム / pH緩衝剤YM / トリスヒドロキシメチルアミノメタン ChemComp-HOH: WATER / 水 ChemComp-NO3: NITRATE ION / 硝酸塩 ChemComp-CL: Unknown entry / クロリド / 塩化物 ChemComp-FMT: FORMIC ACID / ギ酸 / ギ酸 ChemComp-PEG: DI(HYDROXYETHYL)ETHER / ジエチレングリコ-ル / ジエチレングリコール ChemComp-SO4: SULFATE ION / 硫酸ジアニオン / 硫酸塩 ChemComp-ACT: ACETATE ION / 酢酸イオン / 酢酸塩 ChemComp-NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose / N-アセチル-β-D-グルコサミン / N-アセチルグルコサミン ChemComp-PO4: PHOSPHATE ION / ホスファ-ト / リン酸塩 ChemComp-PRO: PROLINE / プロリン / プロリン ChemComp-IMD: IMIDAZOLE / 1H-イミダゾ-ル-3-カチオン / イミダゾール ChemComp-BR: BROMIDE ION / ブロミド / 臭化物 ChemComp-PG6: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE / ペンタグリム / ポリエチレングリコール ChemComp-IOD: IODIDE ION / ヨ-ジド / ヨウ化物 ChemComp-GLU: GLUTAMIC ACID / グルタミン酸 / グルタミン酸 ChemComp-GLY: GLYCINE / グリシン / グリシン ChemComp-PGE: TRIETHYLENE GLYCOL / トリエチレングリコ-ル / ポリエチレングリコール ChemComp-PG4: TETRAETHYLENE GLYCOL / テトラエチレングリコ-ル / 沈殿剤YM / ポリエチレングリコール
由来	severe acute respiratory syndrome coronavirus 2 (SARSコロナウイルス2) homo sapiens (ヒト)
キーワード	VIRAL PROTEIN/IMMUNE SYSTEM (ウイルス性) / SARS-CoV-2 (SARSコロナウイルス2) / antibody (抗体) / germline / V-gene / receptor-binding-domain / spike / neutralisation / protection / glycosylation (グリコシル化) / valency / VIRAL PROTEIN (ウイルスタンパク質) / IMMUNE SYSTEM (免疫系) / VIRAL PROTEIN-IMMUNE SYSTEM complex (ウイルス性)