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Cryoem structure of modified turnip yellows virus devoid of minor capsid protein readthrough domain

Analyse Cryoem structure of modified turnip yellows virus devoid of minor capsid… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6RTK
Type: protein
Length: 419 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein
UniProt: P09508
Pockets: 1 · best druggability 0.59

Structure

electron microscopy · 2 distinct chains · 9% helix, 49% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Major capsid protein	protein	139	9% helix, 52% strand	P09508
C	Major capsid protein	protein	141	10% helix, 46% strand	P09508

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	446	0.59	0.75	42	empty

Interfaces

3 interfaces between chains.

A–B · 489 Å² buried · 8 hydrogen bonds · protein-protein
B–C · 473 Å² buried · 5 hydrogen bonds · protein-protein
A–C · 462 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

6RTK · CryoEM structure of modified Turnip Yellows Virus devoid of minor capsid protein… · 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 P09508
Elsewhere: RCSB PDB 6RTK · PDBe 6RTK · UniProt P09508

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