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Crystal structure of human TYW5
Analyse Crystal structure of human TYW5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3AL6
- Type
- protein
- Length
- 1,188 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Jmjc domain-containing protein C2ORF60
- UniProt
- A2RUC4
- Ligands
- AKG, NI
- Pockets
- 15 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Jmjc domain-containing protein C2ORF60 | protein | 299 | 30% helix, 24% strand | A2RUC4 |
| B, D | Jmjc domain-containing protein C2ORF60 | protein | 308 | 30% helix, 29% strand | A2RUC4 |
| C | Jmjc domain-containing protein C2ORF60 | protein | 273 | 29% helix, 20% strand | A2RUC4 |
Ligands and binding sites
- AKG · 2-oxoglutaric acid · ligand · 2 copies · chains B, D
- NI · Nickel (II) 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
15 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.71 | 0.98 | 20 | NI, AKG |
| 2 | 582 | 0.70 | 0.79 | 83 | NI |
| 3 | 299 | 0.68 | 0.83 | 48 | empty |
| 4 | 90 | 0.60 | 0.87 | 17 | empty |
| 5 | 127 | 0.60 | 0.85 | 25 | empty |
Interfaces
2 interfaces between chains.
- C–D · 2458 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 2422 Ų buried · 11 hydrogen bonds · protein-protein
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 A2RUC4
- Elsewhere: RCSB PDB 3AL6 · PDBe 3AL6 · UniProt A2RUC4
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