National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
5U19AI142790
United States
GHR Foundation
Citation
Journal: Science / Year: 2021 Title: Defining variant-resistant epitopes targeted by SARS-CoV-2 antibodies: A global consortium study. Authors: Kathryn M Hastie / Haoyang Li / Daniel Bedinger / Sharon L Schendel / S Moses Dennison / Kan Li / Vamseedhar Rayaprolu / Xiaoying Yu / Colin Mann / Michelle Zandonatti / Ruben Diaz Avalos / ...Authors: Kathryn M Hastie / Haoyang Li / Daniel Bedinger / Sharon L Schendel / S Moses Dennison / Kan Li / Vamseedhar Rayaprolu / Xiaoying Yu / Colin Mann / Michelle Zandonatti / Ruben Diaz Avalos / Dawid Zyla / Tierra Buck / Sean Hui / Kelly Shaffer / Chitra Hariharan / Jieyun Yin / Eduardo Olmedillas / Adrian Enriquez / Diptiben Parekh / Milite Abraha / Elizabeth Feeney / Gillian Q Horn / / Yoann Aldon / Hanif Ali / Sanja Aracic / Ronald R Cobb / Ross S Federman / Joseph M Fernandez / Jacob Glanville / Robin Green / Gevorg Grigoryan / Ana G Lujan Hernandez / David D Ho / Kuan-Ying A Huang / John Ingraham / Weidong Jiang / Paul Kellam / Cheolmin Kim / Minsoo Kim / Hyeong Mi Kim / Chao Kong / Shelly J Krebs / Fei Lan / Guojun Lang / Sooyoung Lee / Cheuk Lun Leung / Junli Liu / Yanan Lu / Anna MacCamy / Andrew T McGuire / Anne L Palser / Terence H Rabbitts / Zahra Rikhtegaran Tehrani / Mohammad M Sajadi / Rogier W Sanders / Aaron K Sato / Liang Schweizer / Jimin Seo / Bingqing Shen / Jonne L Snitselaar / Leonidas Stamatatos / Yongcong Tan / Milan T Tomic / Marit J van Gils / Sawsan Youssef / Jian Yu / Tom Z Yuan / Qian Zhang / Bjoern Peters / Georgia D Tomaras / Timothy Germann / Erica Ollmann Saphire / Abstract: Antibody-based therapeutics and vaccines are essential to combat COVID-19 morbidity and mortality after severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. Multiple mutations in ...Antibody-based therapeutics and vaccines are essential to combat COVID-19 morbidity and mortality after severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. Multiple mutations in SARS-CoV-2 that could impair antibody defenses propagated in human-to-human transmission and spillover or spillback events between humans and animals. To develop prevention and therapeutic strategies, we formed an international consortium to map the epitope landscape on the SARS-CoV-2 spike protein, defining and structurally illustrating seven receptor binding domain (RBD)–directed antibody communities with distinct footprints and competition profiles. Pseudovirion-based neutralization assays reveal spike mutations, individually and clustered together in variants, that affect antibody function among the communities. Key classes of RBD-targeted antibodies maintain neutralization activity against these emerging SARS-CoV-2 variants. These results provide a framework for selecting antibody treatment cocktails and understanding how viral variants might affect antibody therapeutic efficacy.
History
Deposition
Jun 24, 2021
-
Header (metadata) release
Jul 7, 2021
-
Map release
Jul 7, 2021
-
Update
Nov 10, 2021
-
Current status
Nov 10, 2021
Processing site: RCSB / Status: Released
-
Structure visualization
Movie
Surface view with section colored by density value
In the structure databanks used in Yorodumi, some data are registered as the other names, "COVID-19 virus" and "2019-nCoV". Here are the details of the virus and the list of structure data.
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)
EMDB accession codes are about to change! (news from PDBe EMDB page)
The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
The EM Navigator/Yorodumi systems omit the EMD- prefix.
Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator
Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.
Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi