Research workbench

Assembly intermediates of orthoreovirus captured in the cell

Analyse Assembly intermediates of orthoreovirus captured in the cell in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6ZTZ
Type: protein
Length: 7,179 residues
Chains: 11
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Inner capsid protein lambda-1; Inner capsid protein sigma-2; Outer capsid protein mu-1…
UniProt: Q9WAB2, P11314, P11077, P11079, P07939
Pockets: 20 · best druggability 0.91

Structure

electron microscopy · 6 distinct chains · 32% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Inner capsid protein lambda-1	protein	1035	33% helix, 12% strand	Q9WAB2
C	Inner capsid protein lambda-1	protein	1008	34% helix, 13% strand	Q9WAB2
D, P	Inner capsid protein sigma-2	protein	417	42% helix, 7% strand	P11314
K, L, M	Outer capsid protein mu-1	protein	641	36% helix, 15% strand	P11077
O	Outer capsid protein lambda-2	protein	1284	23% helix, 23% strand	P11079
X, Y, Z	Outer capsid protein sigma-3	protein	365	37% helix, 12% strand	P07939

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	1016	0.91	0.93	154	empty
2	782	0.90	0.94	129	empty
3	795	0.89	0.93	117	empty
4	1137	0.89	0.91	139	empty
5	667	0.89	0.94	113	empty

Interfaces

22 interfaces between chains.

L–M · 4085 Å² buried · 64 hydrogen bonds · protein-protein
K–L · 4023 Å² buried · 68 hydrogen bonds · protein-protein
K–M · 3894 Å² buried · 57 hydrogen bonds · protein-protein
B–C · 2377 Å² buried · 43 hydrogen bonds · protein-protein
B–P · 2144 Å² buried · 22 hydrogen bonds · protein-protein

Compared structures

6ZTZ · Assembly intermediates of orthoreovirus captured in the cell · the same entry in another collection · chain B against B, 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 Q9WAB2
Every structure of UniProt P11314
Every structure of UniProt P11077
Every structure of UniProt P11079
Every structure of UniProt P07939
Elsewhere: RCSB PDB 6ZTZ · PDBe 6ZTZ · UniProt Q9WAB2 · UniProt P11314 · UniProt P11077 · UniProt P11079 · UniProt P07939

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