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TitleStructural and functional characterizations of infectivity and immune evasion of SARS-CoV-2 Omicron.
Journal, issue, pagesCell, Vol. 185, Issue 5, Page 860-871.e13, Year 2022
Publish dateMar 3, 2022
AuthorsZhen Cui / Pan Liu / Nan Wang / Lei Wang / Kaiyue Fan / Qianhui Zhu / Kang Wang / Ruihong Chen / Rui Feng / Zijing Jia / Minnan Yang / Ge Xu / Boling Zhu / Wangjun Fu / Tianming Chu / Leilei Feng / Yide Wang / Xinran Pei / Peng Yang / Xiaoliang Sunney Xie / Lei Cao / Yunlong Cao / Xiangxi Wang /
PubMed AbstractThe SARS-CoV-2 Omicron variant with increased fitness is spreading rapidly worldwide. Analysis of cryo-EM structures of the spike (S) from Omicron reveals amino acid substitutions forging ...The SARS-CoV-2 Omicron variant with increased fitness is spreading rapidly worldwide. Analysis of cryo-EM structures of the spike (S) from Omicron reveals amino acid substitutions forging interactions that stably maintain an active conformation for receptor recognition. The relatively more compact domain organization confers improved stability and enhances attachment but compromises the efficiency of the viral fusion step. Alterations in local conformation, charge, and hydrophobic microenvironments underpin the modulation of the epitopes such that they are not recognized by most NTD- and RBD-antibodies, facilitating viral immune escape. Structure of the Omicron S bound with human ACE2, together with the analysis of sequence conservation in ACE2 binding region of 25 sarbecovirus members, as well as heatmaps of the immunogenic sites and their corresponding mutational frequencies, sheds light on conserved and structurally restrained regions that can be used for the development of broad-spectrum vaccines and therapeutics.
External linksCell / PubMed:35120603 / PubMed Central
MethodsEM (single particle)
Resolution3.4 - 4.0 Å
Structure data

32478

7wg6

EMDB-32478, PDB-7wg6:
Neutral Omicron Spike Trimer
Method: EM (single particle) / Resolution: 3.4 Å

32479

7wg7

EMDB-32479, PDB-7wg7:
Acidic Omicron Spike Trimer
Method: EM (single particle) / Resolution: 4.0 Å

32480

7wg8

EMDB-32480, PDB-7wg8:
Delta Spike Trimer(3 RBD Down)
Method: EM (single particle) / Resolution: 3.9 Å

32481

7wg9

EMDB-32481, PDB-7wg9:
Delta Spike Trimer(1 RBD Up)
Method: EM (single particle) / Resolution: 3.5 Å

32482

7wgb

EMDB-32482, PDB-7wgb:
Neutral Omicron Spike Trimer in complex with ACE2
Method: EM (single particle) / Resolution: 3.5 Å

32483

7wgc

EMDB-32483, PDB-7wgc:
Neutral Omicron Spike Trimer in complex with ACE2.
Method: EM (single particle) / Resolution: 3.6 Å

Chemicals

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose / N-Acetylglucosamine

Source
  • severe acute respiratory syndrome coronavirus 2
  • homo sapiens (human)
KeywordsSTRUCTURAL PROTEIN / SARS-CoV-2 / Omicron / Spike / Neutral / Acidic / Delta / ACE2

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