MolNFT v1 · #126186 · protein

Aichi virus 1: empty particle

5LVC · VP1: “Aichi virus 1: empty particle”. Electron microscopy, 7 pockets (best druggability 0.59). MolNFT v1 #126186 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5LVC
Type: protein
Length: 717 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: VP1; VP0; VP3
UniProt: Q91QP4, O91464
Pockets: 7 · best druggability 0.59

Structure

electron microscopy · 3 distinct chains · 9% helix, 35% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
a	VP1	protein	205	8% helix, 40% strand	Q91QP4
b	VP0	protein	289	11% helix, 32% strand	Q91QP4
c	VP3	protein	223	8% helix, 36% strand	O91464

Pockets

7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	191	0.59	0.81	29	empty
2	66	0.58	0.89	19	empty
3	116	0.48	0.80	30	empty
4	141	0.47	0.77	21	empty
5	113	0.43	0.77	16	empty

Interfaces

3 interfaces between chains.

a–c · 2098 Å² buried · 16 hydrogen bonds · protein-protein
b–c · 2096 Å² buried · 27 hydrogen bonds · protein-protein
a–b · 1630 Å² buried · 18 hydrogen bonds · protein-protein

Compared structures

5LVC · Aichi virus 1: empty particle · 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 Q91QP4
Every structure of UniProt O91464
Elsewhere: RCSB PDB 5LVC · PDBe 5LVC · UniProt Q91QP4 · UniProt O91464

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