ISDA

Deposition Date 2022-06-29

Release Date 2023-09-06

Last Version Date 2024-11-20

Entry Detail

PDB ID:

7YBK

Keywords:

VIRAL PROTEIN

Title:

SARS-CoV-2 B.1.620 variant spike (open state)

Biological Source:

Source Organism:

Severe acute respiratory syndrome coronavirus 2 (Taxon ID: 2697049)

Host Organism:

Homo sapiens

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.90 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Spike glycoprotein
Gene (Uniprot):S
Chain IDs:A, B, C
Chain Length:1266
Number of Molecules:3
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTC2 Pfam ID:PF16451, PF09408, PF19209, PF01601

Ligand Molecules

NAG

Primary Citation

Structures of SARS-CoV-2 spike protein alert noteworthy sites for the potential approaching variants.

Xing, X, Wang, L, Cui, Z, Fu, W, Zheng, T, Qin, L, Ge, P, Qian, A, Wang, N, Yuan, S.Show

Virol Sin 37 938 941 (2022)

PMID: 36368512 DOI: 10.1016/j.virs.2022.11.003

Abstact

• Deletion of residues 156–157 warps the neighboring beta-sheet and leads NTD and RBD to shift. • T859N stabilizes the packing of the 630 loop motif to make RBD standing transition more difficult. • The overall structures of the closed state S complex from different variants resemble each other. • Mutations in FPPR may affect the overall structure of the trimeric spike protein.

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Protein

Chemical

Disease

Primary Citation of related structures