MolNFT v1 · #127082 · protein

Nora virus structure

5MM2 · Capsid protein VP4C: “Nora virus structure”. Electron microscopy, 13 pockets (best druggability 0.69). MolNFT v1 #127082 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5MM2
Type: protein
Length: 854 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein VP4C; Capsid protein VP4B; Capsid protein VP4A
UniProt: Q27YG7, D2WFA0
Pockets: 13 · best druggability 0.69

Structure

electron microscopy · 3 distinct chains · 10% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Capsid protein VP4C	protein	364	16% helix, 21% strand	Q27YG7
B	Capsid protein VP4B	protein	241	7% helix, 26% strand	Q27YG7
C	Capsid protein VP4A	protein	249	5% helix, 30% strand	D2WFA0

Pockets

13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	181	0.69	0.87	28	empty
2	467	0.63	0.76	39	empty
3	571	0.63	0.75	58	empty
4	269	0.56	0.77	36	empty
5	99	0.43	0.79	26	empty

Interfaces

3 interfaces between chains.

B–C · 1729 Å² buried · 46 hydrogen bonds · protein-protein
A–B · 1471 Å² buried · 44 hydrogen bonds · protein-protein
A–C · 1161 Å² buried · 16 hydrogen bonds · protein-protein

Compared structures

5MM2 · nora virus structure · 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 Q27YG7
Every structure of UniProt D2WFA0
Elsewhere: RCSB PDB 5MM2 · PDBe 5MM2 · UniProt Q27YG7 · UniProt D2WFA0

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