Research workbench

Virus-like particles based on potato virus Y

Analyse Virus-like particles based on potato virus Y in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6HXZ
Type: protein
Length: 4,224 residues
Chains: 24
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Polyprotein
UniProt: A0A0C4URS3
Pockets: 20 · best druggability 0.61

Structure

electron microscopy · 1 distinct chain · 41% helix, 8% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x	Polyprotein	protein	176	41% helix, 8% strand	A0A0C4URS3

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	269	0.61	0.80	30	empty
2	231	0.61	0.81	25	empty
3	247	0.60	0.80	26	empty
4	245	0.60	0.80	26	empty
5	241	0.60	0.80	27	empty

Interfaces

96 interfaces between chains.

w–x · 1898 Å² buried · 21 hydrogen bonds · protein-protein
t–u · 1897 Å² buried · 21 hydrogen bonds · protein-protein
a–h · 1895 Å² buried · 21 hydrogen bonds · protein-protein
k–l · 1894 Å² buried · 21 hydrogen bonds · protein-protein
s–t · 1894 Å² buried · 21 hydrogen bonds · protein-protein

Compared structures

6HXZ · Virus-like Particles based on Potato Virus Y · 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 A0A0C4URS3
Elsewhere: RCSB PDB 6HXZ · PDBe 6HXZ · UniProt A0A0C4URS3

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