MolNFT v1 · #177736 · protein

Mature donggang virus

7ESD · Genome polyprotein: “Mature donggang virus”. Electron microscopy, 20 pockets (best druggability 0.87). MolNFT v1 #177736 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7ESD
Type: protein
Length: 1,713 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Genome polyprotein
UniProt: H9BYJ9
Pockets: 20 · best druggability 0.87

Structure

electron microscopy · 2 distinct chains · 23% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Genome polyprotein	protein	499	18% helix, 25% strand	H9BYJ9
D, E, F	Genome polyprotein	protein	72	58% helix, 0% strand	H9BYJ9

Pockets

20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1101	0.87	0.87	134	empty
2	800	0.82	0.85	92	empty
3	1185	0.81	0.82	96	empty
4	276	0.79	0.90	46	empty
5	325	0.76	0.87	44	empty

Interfaces

9 interfaces between chains.

A–C · 1192 Å² buried · 3 hydrogen bonds · protein-protein
A–D · 1162 Å² buried · 15 hydrogen bonds · protein-protein
B–E · 1137 Å² buried · 17 hydrogen bonds · protein-protein
C–F · 1125 Å² buried · 15 hydrogen bonds · protein-protein
D–F · 1062 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide (disulfide).

Compared structures

7ESD · Mature Donggang virus · 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 H9BYJ9
Elsewhere: RCSB PDB 7ESD · PDBe 7ESD · UniProt H9BYJ9

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