MolNFT v1 · #178287 · protein

SARS-cov-2 spike protein in closed state

7FB0 · Spike glycoprotein: “SARS-cov-2 spike protein in closed state”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #178287 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7FB0
Type: protein
Length: 2,926 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spike glycoprotein
UniProt: P0DTC2
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 2 distinct chains · 22% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spike glycoprotein	protein	976	23% helix, 25% strand	P0DTC2
B, C	Spike glycoprotein	protein	975	22% helix, 26% strand	P0DTC2

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	928	0.86	0.88	118	empty
2	534	0.84	0.90	60	empty
3	924	0.80	0.82	75	empty
4	936	0.79	0.81	76	empty
5	466	0.79	0.87	65	empty

Interfaces

3 interfaces between chains.

A–C · 4544 Å² buried · 34 hydrogen bonds · protein-protein
B–C · 4525 Å² buried · 34 hydrogen bonds · protein-protein
A–B · 4485 Å² buried · 33 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 36 disulfide (disulfide).

Compared structures

7FB0 · SARS-CoV-2 spike protein in closed state · the same entry in another collection · chain A against A, TM-score 1.00

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
Elsewhere: RCSB PDB 7FB0 · PDBe 7FB0 · UniProt P0DTC2

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