MolNFT v1 · #177984 · protein

A SARS-cov-2 neutralizing antibody

7F0X · Spike protein S1: “A SARS-cov-2 neutralizing antibody”. X-ray diffraction, 4 pockets (best druggability 0.51). MolNFT v1 #177984 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7F0X
Type: protein
Length: 411 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spike protein S1; Antibody
UniProt: P0DTC2
Pockets: 4 · best druggability 0.51

Structure

x-ray diffraction · 2 distinct chains · 9% helix, 40% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spike protein S1	protein	183	16% helix, 29% strand	P0DTC2
B	Antibody	protein	228	4% helix, 49% strand	—

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	178	0.51	0.78	24	empty
2	83	0.35	0.75	17	empty
3	66	0.34	0.77	17	empty
4	61	0.30	0.74	12	empty

Interfaces

1 interface between chains.

A–B · 598 Å² buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

7F0X · A SARS-CoV-2 neutralizing antibody · 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 7F0X · PDBe 7F0X · UniProt P0DTC2

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