MolNFT v1 · #18763 · protein
Modulation of agrin function by alternative splicing and CA2+ binding
1PZ8: “Modulation of agrin function by alternative splicing and CA2+ binding”. X-ray diffraction, 1 ligand (CA), 6 pockets (best druggability 0.70). MolNFT v1 #18763 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1PZ8
- Type
- protein
- Length
- 708 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Agrin
- UniProt
- P31696
- Ligands
- CA
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 4 distinct chains · 3% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Agrin | protein | 176 | 2% helix, 49% strand | P31696 |
| B | Agrin | protein | 179 | 2% helix, 47% strand | P31696 |
| C | Agrin | protein | 176 | 2% helix, 51% strand | P31696 |
| D | Agrin | protein | 177 | 5% helix, 50% strand | P31696 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 81 | 0.70 | 0.94 | 25 | empty |
| 2 | 85 | 0.57 | 0.86 | 20 | empty |
| 3 | 83 | 0.50 | 0.83 | 21 | empty |
| 4 | 60 | 0.44 | 0.82 | 19 | empty |
| 5 | 54 | 0.33 | 0.78 | 21 | empty |
Interfaces
3 interfaces between chains.
- B–D · 824 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 116 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 26 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
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 P31696
- Elsewhere: RCSB PDB 1PZ8 · PDBe 1PZ8 · UniProt P31696
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.