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Cryoem model of the vesicular stomatitis virus

Analyse Cryoem model of the vesicular stomatitis virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2WYY
Type: protein + RNA
Length: 4,230 residues
Chains: 12
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleoprotein; Poly-uridine
UniProt: P03521
Pockets: 20 · best druggability 0.88

Structure

electron microscopy · 2 distinct chains · 43% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, D, F, H, I, J, K, L, M	Nucleoprotein	protein	414	43% helix, 5% strand	P03521
R, S	Poly-uridine	rna	45	—	—

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	898	0.88	0.90	117	empty
2	1010	0.86	0.88	111	empty
3	1010	0.86	0.87	112	empty
4	969	0.86	0.87	96	empty
5	960	0.86	0.87	109	empty

Interfaces

29 interfaces between chains.

A–D · 2094 Å² buried · 14 hydrogen bonds · protein-protein
D–F · 2090 Å² buried · 14 hydrogen bonds · protein-protein
A–C · 2088 Å² buried · 14 hydrogen bonds · protein-protein
C–M · 2087 Å² buried · 14 hydrogen bonds · protein-protein
K–L · 2087 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

2WYY · Cryoem model of the vesicular stomatitis virus · 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 P03521
Elsewhere: RCSB PDB 2WYY · PDBe 2WYY · UniProt P03521

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