MolNFT v1 · #111607 · protein

Crystal structure of the virus-like particle of a C4 strain EV71

4YVS · Capsid protein VP1: “Crystal structure of the virus-like particle of a C4 strain EV71”. X-ray diffraction, 20 pockets (best druggability 0.79). MolNFT v1 #111607 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4YVS
Type: protein
Length: 3,405 residues
Chains: 15
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein VP1; Capsid protein VP3; Capsid protein VP0
UniProt: F6KTB0
Pockets: 20 · best druggability 0.79

Structure

x-ray diffraction · 3 distinct chains · 9% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D, G, J, M	Capsid protein VP1	protein	226	9% helix, 31% strand	F6KTB0
B, E, H, K, N	Capsid protein VP3	protein	224	12% helix, 33% strand	F6KTB0
C, F, I, L, O	Capsid protein VP0	protein	231	7% helix, 33% strand	F6KTB0

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	653	0.79	0.84	78	empty
2	829	0.79	0.82	98	empty
3	656	0.79	0.84	70	empty
4	621	0.79	0.84	59	empty
5	895	0.79	0.81	61	empty

Interfaces

54 interfaces between chains.

J–K · 3192 Å² buried · 43 hydrogen bonds · protein-protein
A–B · 3116 Å² buried · 42 hydrogen bonds · protein-protein
D–E · 3085 Å² buried · 42 hydrogen bonds · protein-protein
G–H · 3084 Å² buried · 41 hydrogen bonds · protein-protein
M–N · 3058 Å² buried · 43 hydrogen bonds · protein-protein

Compared structures

4YVS · crystal structure of the virus-like particle of a c4 strain EV71 · 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 F6KTB0
Elsewhere: RCSB PDB 4YVS · PDBe 4YVS · UniProt F6KTB0

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