MolNFT v1 · #189980 · protein

Transition state of SARS-cov-2 delta variant spike protein

7W94 · Spike glycoprotein: “Transition state of SARS-cov-2 delta variant spike protein”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #189980 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7W94
Type: protein
Length: 3,206 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spike glycoprotein
UniProt: P0DTC2
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 2 distinct chains · 19% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B, C	Spike glycoprotein	protein	1068	19% helix, 27% strand	P0DTC2
A	Spike glycoprotein	protein	1070	19% helix, 30% 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	760	0.85	0.88	87	empty
2	1095	0.85	0.86	122	empty
3	973	0.82	0.84	95	empty
4	1146	0.81	0.82	116	empty
5	689	0.81	0.85	67	empty

Interfaces

3 interfaces between chains.

B–C · 4588 Å² buried · 33 hydrogen bonds · protein-protein
C–A · 4461 Å² buried · 46 hydrogen bonds · protein-protein
B–A · 4353 Å² buried · 26 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 39 disulfide (disulfide).

Compared structures

7W94 · Transition state of SARS-CoV-2 Delta variant spike protein · the same entry in another collection · chain B against B, 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 7W94 · PDBe 7W94 · UniProt P0DTC2

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.