MolNFT v1 · #152823 · protein

Cryo-EM structure of murine norovirus capsid

6IUK · Major capsid protein VP1: “Cryo-EM structure of murine norovirus capsid”. Electron microscopy, 17 pockets (best druggability 0.76). MolNFT v1 #152823 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6IUK
Type: protein
Length: 1,531 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein VP1
UniProt: B7XA03
Pockets: 17 · best druggability 0.76

Structure

electron microscopy · 3 distinct chains · 4% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Major capsid protein VP1	protein	513	5% helix, 27% strand	B7XA03
B	Major capsid protein VP1	protein	516	3% helix, 28% strand	B7XA03
C	Major capsid protein VP1	protein	502	5% helix, 28% strand	B7XA03

Pockets

17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	988	0.76	0.79	85	empty
2	414	0.76	0.85	64	empty
3	91	0.76	0.97	20	empty
4	263	0.72	0.87	33	empty
5	350	0.60	0.77	45	empty

Interfaces

3 interfaces between chains.

A–B · 3105 Å² buried · 40 hydrogen bonds · protein-protein
B–C · 1945 Å² buried · 25 hydrogen bonds · protein-protein
A–C · 1303 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

6IUK · Cryo-EM structure of Murine Norovirus capsid · 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 B7XA03
Elsewhere: RCSB PDB 6IUK · PDBe 6IUK · UniProt B7XA03

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