Research workbench
The structure of AAVRH32.33, a novel gene delivery vector
Analyse The structure of AAVRH32.33, a novel gene delivery vector in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4IOV
- Type
- protein
- Length
- 520 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1
- UniProt
- B4Y891
- Ligands
- D5M
- Pockets
- 4 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 520 | 7% helix, 32% strand | B4Y891 |
Ligands and binding sites
- D5M · 2'-deoxyadenosine-5'-monophosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 296 | 0.57 | 0.77 | 44 | D5M |
| 2 | 291 | 0.55 | 0.76 | 37 | empty |
| 3 | 184 | 0.47 | 0.75 | 25 | empty |
| 4 | 66 | 0.38 | 0.79 | 20 | empty |
Compared structures
- 4IOV · The structure of AAVrh32.33, a Novel Gene Delivery 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 B4Y891
- Elsewhere: RCSB PDB 4IOV · PDBe 4IOV · UniProt B4Y891
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