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Adeno-associated virus (aav-dj) - cryo-EM structure at 1.56 ångström resolution

Analyse Adeno-associated virus (aav-dj) - cryo-EM structure at 1.56 ångström resolution in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7KFR
Type: protein
Length: 521 residues
Chains: 1
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein VP1
UniProt: Q6JC41
Ligands: MG
Pockets: 6 · best druggability 0.71

Structure

electron microscopy · 1 distinct chain · 8% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Capsid protein VP1	protein	521	8% helix, 34% strand	Q6JC41

Ligands and binding sites

MG · Magnesium ion · metal · 3 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	921	0.71	0.75	95	empty
2	118	0.45	0.78	26	empty
3	134	0.40	0.74	23	empty
4	118	0.39	0.74	18	empty
5	68	0.33	0.76	19	empty

Compared structures

7KFR · Adeno-Associated Virus (AAV-DJ) - cryo-EM structure at 1.56 Angstrom Resolution · 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 Q6JC41
Elsewhere: RCSB PDB 7KFR · PDBe 7KFR · UniProt Q6JC41

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