MolNFT v1 · #94581 · protein
Structure-based design of novel dihydroisoquinoline bace-1 inhibitors that do not engage the catalytic aspartates
4I10 · Beta-secretase 1: “Structure-based design of novel dihydroisoquinoline bace-1 inhibitors that do not engage the catalytic…”. X-ray diffraction, 2 ligands (1BS, ZN), 3 pockets (best druggability 0.69). MolNFT v1 #94581 on GenesisL1…
- PDB
- 4I10
- Type
- protein
- Length
- 390 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-secretase 1
- EC
- 3.4.23.46
- UniProt
- P56817
- Ligands
- 1BS, ZN
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 14% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-secretase 1 (EC 3.4.23.46) | protein | 390 | 14% helix, 41% strand | P56817 |
Ligands and binding sites
- 1BS · 2-{(1S)-1-[(6-chloro-3,3-dimethyl-3,4-dihydroisoquinolin-1-yl)amino]-2-phenylethyl}pyrido[4,3-d]pyrimidin-4(1H)-one · ligand · chains A
- ZN · Zinc ion · metal · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 529 | 0.69 | 0.79 | 49 | 1BS |
| 2 | 160 | 0.50 | 0.78 | 27 | empty |
| 3 | 55 | 0.34 | 0.78 | 17 | empty |
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 4I10 · Structure-based design of novel dihydroisoquinoline BACE-1 inhibitors that do not engage… · the same entry in another collection · chain A against A, TM-score 1.00
- P56817 · AlphaFold monomer V2.0 prediction for beta-secretase 1 (P56817) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P56817
- Elsewhere: RCSB PDB 4I10 · PDBe 4I10 · UniProt P56817
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