Research workbench

SARS-cov-2 omicron BA.2 variant spike trimer with three human ACE2 bound

Analyse SARS-cov-2 omicron BA.2 variant spike trimer with three human ACE2 bound in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7XO8
Type: protein
Length: 4,863 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P0DTC2, Q9BYF1
Ligands: NAG, ZN, CL

Structure

electron microscopy · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	—	protein	1026	—	P0DTC2
D, F, E	—	protein	595	—	Q9BYF1

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 39 copies · chains A, C, B, D, F, E
ZN · Zinc ion · metal · 3 copies · chains D, F, E
CL · Chloride ion · ion · 3 copies · chains D, F, E

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

7XO8 · SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with three human ACE2 Bound · the same entry in another collection · chain B against B, TM-score 1.00
3SCJ · Crystal structure of spike protein receptor-binding domain from a predicted SARS… · a predicted model of the same protein · chain F against A, TM-score 0.99
3SCJ · Crystal structure of spike protein receptor-binding domain from a predicted SARS… · a predicted model of the same protein · chain F against A, TM-score 0.99

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P0DTC2
Every structure of UniProt Q9BYF1
Elsewhere: RCSB PDB 7XO8 · PDBe 7XO8 · UniProt P0DTC2 · UniProt Q9BYF1

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