MolNFT v1 · #126228 · protein

Israeli acute paralysis virus heated to 63 degree - empty particle

5LWI · VP1: “Israeli acute paralysis virus heated to 63 degree - empty particle”. Electron microscopy, 14 pockets (best druggability 0.59). MolNFT v1 #126228 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5LWI
Type: protein
Length: 744 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: VP1; VP2; Structural polyprotein
Pockets: 14 · best druggability 0.59

Structure

electron microscopy · 3 distinct chains · 8% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	VP1	protein	208	12% helix, 29% strand	—
C	VP2	protein	300	4% helix, 31% strand	—
B	Structural polyprotein	protein	236	9% helix, 25% strand	—

Pockets

14 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	149	0.59	0.84	26	empty
2	63	0.55	0.88	27	empty
3	71	0.46	0.83	14	empty
4	167	0.43	0.74	23	empty
5	62	0.43	0.82	18	empty

Interfaces

3 interfaces between chains.

A–C · 4784 Å² buried · 54 hydrogen bonds · protein-protein
C–B · 1584 Å² buried · 12 hydrogen bonds · protein-protein
A–B · 1080 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

5LWI · Israeli acute paralysis virus heated to 63 degree - 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
Elsewhere: RCSB PDB 5LWI · PDBe 5LWI

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