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Disulfide stabilized norovirus GI.1 vlp shell region

Analyse Disulfide stabilized norovirus GI.1 vlp shell region in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7KJP
Type: protein
Length: 515 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein VP1
UniProt: Q83884
Pockets: 8 · best druggability 0.70

Structure

electron microscopy · 3 distinct chains · 10% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Capsid protein VP1	protein	176	9% helix, 35% strand	Q83884
B	Capsid protein VP1	protein	173	8% helix, 35% strand	Q83884
C	Capsid protein VP1	protein	166	13% helix, 33% strand	Q83884

Pockets

8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	59	0.70	0.96	21	empty
2	420	0.65	0.78	43	empty
3	59	0.63	0.92	15	empty
4	114	0.43	0.78	17	empty
5	67	0.39	0.79	18	empty

Interfaces

3 interfaces between chains.

B–C · 898 Å² buried · 4 hydrogen bonds · protein-protein
A–C · 706 Å² buried · 4 hydrogen bonds · protein-protein
A–B · 186 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

7KJP · Disulfide Stabilized Norovirus GI.1 VLP Shell Region · 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 Q83884
Elsewhere: RCSB PDB 7KJP · PDBe 7KJP · UniProt Q83884

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