MolNFT v1 · #9485 · protein
Crystal structure of wild type duck delta 1 crystallin (eye lens protein)
1HY0 · Delta crystallin I: “Crystal structure of wild type duck delta 1 crystallin (eye lens protein)”. X-ray diffraction, 1 ligand (SO4), 9 pockets (best druggability 0.59). MolNFT v1 #9485 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1HY0
- Type
- protein
- Length
- 895 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Delta crystallin I
- EC
- 4.3.2.1
- UniProt
- P24057
- Ligands
- SO4
- Pockets
- 9 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 68% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Delta crystallin I (EC 4.3.2.1) | protein | 447 | 68% helix, 5% strand | P24057 |
| B | Delta crystallin I (EC 4.3.2.1) | protein | 448 | 68% helix, 5% strand | P24057 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 475 | 0.59 | 0.74 | 57 | empty |
| 2 | 111 | 0.55 | 0.84 | 28 | empty |
| 3 | 101 | 0.51 | 0.83 | 21 | empty |
| 4 | 188 | 0.49 | 0.76 | 27 | empty |
| 5 | 184 | 0.48 | 0.76 | 29 | empty |
Interfaces
1 interface between chains.
- A–B · 1900 Ų buried · 33 hydrogen bonds · protein-protein
Compared structures
- 1HY0 · Crystal structure of wild type duck delta 1 crystallin (eye lens protein) · the same entry in another collection · chain A against A, TM-score 1.00
- P24057 · AlphaFold monomer V2.0 prediction for delta-1 crystallin (P24057) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P24057
- Elsewhere: RCSB PDB 1HY0 · PDBe 1HY0 · UniProt P24057
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