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The structure of the neurotropic AAVRH.8 viral vector

Analyse The structure of the neurotropic AAVRH.8 viral vector in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4RSO
Type: protein
Length: 520 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein VP1
UniProt: Q808Y3
Ligands: DA, NA, CL
Pockets: 6 · best druggability 0.68

Structure

x-ray diffraction · 1 distinct chain · 6% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Capsid protein VP1	protein	520	6% helix, 34% strand	Q808Y3

Ligands and binding sites

DA · 2'-deoxyadenosine-5'-monophosphate · ligand · chains A
NA · Sodium ion · metal · chains A
CL · Chloride ion · ion · 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	659	0.68	0.76	78	CL
2	198	0.46	0.74	34	empty
3	112	0.42	0.77	23	DA
4	67	0.34	0.77	18	empty
5	91	0.33	0.73	15	empty

Compared structures

4RSO · The structure of the neurotropic AAVrh.8 viral vector · 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 Q808Y3
Elsewhere: RCSB PDB 4RSO · PDBe 4RSO · UniProt Q808Y3

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