MolNFT v1 · #122604 · protein
Crystal structure of zebrafish protocadherin-19 EC1-4
5IU9 · Protocadherin-19 isoform 1: “Crystal structure of zebrafish protocadherin-19 EC1-4”. X-ray diffraction, 2 ligands (CA, NA), 9 pockets (best druggability 0.68). MolNFT v1 #122604 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5IU9
- Type
- protein
- Length
- 839 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protocadherin-19 isoform 1
- UniProt
- C4P340
- Ligands
- CA, NA
- Pockets
- 9 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protocadherin-19 isoform 1 | protein | 417 | 7% helix, 42% strand | C4P340 |
| B | Protocadherin-19 isoform 1 | protein | 422 | 6% helix, 41% strand | C4P340 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 598 | 0.68 | 0.77 | 55 | empty |
| 2 | 124 | 0.57 | 0.83 | 27 | empty |
| 3 | 333 | 0.56 | 0.76 | 37 | empty |
| 4 | 198 | 0.53 | 0.78 | 28 | empty |
| 5 | 113 | 0.46 | 0.79 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1765 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5IU9 · Crystal Structure of Zebrafish Protocadherin-19 EC1-4 · 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 C4P340
- Elsewhere: RCSB PDB 5IU9 · PDBe 5IU9 · UniProt C4P340
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.