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Cryo-EM structure of mal de rio cuarto virus P9-1 viroplasm protein (decamer)

Analyse Cryo-EM structure of mal de rio cuarto virus P9-1 viroplasm protein (decamer) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7KVC
Type: protein
Length: 2,660 residues
Chains: 10
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: P9-1
UniProt: D9U542
Pockets: 20 · best druggability 0.79

Structure

electron microscopy · 1 distinct chain · 36% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J	P9-1	protein	266	36% helix, 17% strand	D9U542

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	148	0.79	0.95	37	empty
2	147	0.78	0.95	34	empty
3	134	0.78	0.95	31	empty
4	140	0.78	0.95	33	empty
5	138	0.78	0.95	31	empty

Interfaces

20 interfaces between chains.

B–C · 1434 Å² buried · 3 hydrogen bonds · protein-protein
D–E · 1414 Å² buried · 4 hydrogen bonds · protein-protein
F–G · 1397 Å² buried · 4 hydrogen bonds · protein-protein
A–J · 1375 Å² buried · 4 hydrogen bonds · protein-protein
H–I · 1349 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

7KVC · Cryo-EM structure of Mal de Rio Cuarto virus P9-1 viroplasm protein (decamer) · 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 D9U542
Elsewhere: RCSB PDB 7KVC · PDBe 7KVC · UniProt D9U542

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