MolNFT v1 · #23468 · protein
Crystal structure of a duck-delta-crystallin-1 double loop mutant (dlm)
1U15 · Delta crystallin I: “Crystal structure of a duck-delta-crystallin-1 double loop mutant (dlm)”. X-ray diffraction, 20 pockets (best druggability 0.76). MolNFT v1 #23468 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1U15
- Type
- protein
- Length
- 1,797 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Delta crystallin I
- EC
- 4.3.2.1
- UniProt
- P24057
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 68% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Delta crystallin I (EC 4.3.2.1) | protein | 449 | 69% helix, 5% strand | P24057 |
| B, D | Delta crystallin I (EC 4.3.2.1) | protein | 450 | 68% helix, 4% strand | P24057 |
| C | Delta crystallin I (EC 4.3.2.1) | protein | 448 | 68% helix, 5% strand | P24057 |
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 73 | 0.76 | 0.99 | 22 | empty |
| 2 | 77 | 0.76 | 0.99 | 23 | empty |
| 3 | 734 | 0.76 | 0.81 | 60 | empty |
| 4 | 773 | 0.75 | 0.80 | 59 | empty |
| 5 | 696 | 0.75 | 0.81 | 53 | empty |
Interfaces
6 interfaces between chains.
- B–D · 3893 Ų buried · 72 hydrogen bonds · protein-protein
- A–C · 3821 Ų buried · 68 hydrogen bonds · protein-protein
- B–C · 1866 Ų buried · 25 hydrogen bonds · protein-protein
- A–D · 1847 Ų buried · 25 hydrogen bonds · protein-protein
- A–B · 1805 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 1U15 · Crystal structure of a duck-delta-crystallin-1 double loop mutant (DLM) · the same entry in another collection · chain D against D, TM-score 1.00
- P24057 · AlphaFold monomer V2.0 prediction for delta-1 crystallin (P24057) · a predicted model of the same protein · chain D 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 P24057
- Elsewhere: RCSB PDB 1U15 · PDBe 1U15 · UniProt P24057
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