MolNFT v1 · #162780 · protein

Atlantic cod nervous necrosis virus-like particle produced in nicotiana benthamiana

6RJ0 · Coat protein: “Atlantic cod nervous necrosis virus-like particle produced in nicotiana benthamiana”. Electron microscopy, 6 pockets (best druggability 0.67). MolNFT v1 #162780 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 6RJ0
Type: protein
Length: 506 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Coat protein
Pockets: 6 · best druggability 0.67

Structure

electron microscopy · 3 distinct chains · 7% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Coat protein	protein	162	7% helix, 31% strand	—
B	Coat protein	protein	163	7% helix, 37% strand	—
C	Coat protein	protein	181	7% helix, 31% strand	—

Pockets

6 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	394	0.67	0.80	40	empty
2	149	0.50	0.79	23	empty
3	111	0.48	0.80	17	empty
4	119	0.46	0.79	19	empty
5	50	0.38	0.81	15	empty

Interfaces

3 interfaces between chains.

B–C · 1110 Å² buried · 11 hydrogen bonds · protein-protein
A–B · 674 Å² buried · 5 hydrogen bonds · protein-protein
A–C · 615 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

6RJ0 · Atlantic Cod Nervous Necrosis Virus-Like Particle produced in Nicotiana benthamiana · 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 6RJ0 · PDBe 6RJ0

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