Research workbench
Ring-dtc domains of deltex 2, form 2
Analyse Ring-dtc domains of deltex 2, form 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Y2X
- Type
- protein
- Length
- 408 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable E3 ubiquitin-protein ligase DTX2
- EC
- 2.3.2.27
- UniProt
- Q86UW9
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable E3 ubiquitin-protein ligase DTX2 (EC 2.3.2.27) | protein | 231 | 21% helix, 22% strand | Q86UW9 |
| B | Probable E3 ubiquitin-protein ligase DTX2 (EC 2.3.2.27) | protein | 177 | 23% helix, 18% strand | Q86UW9 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 265 | 0.51 | 0.75 | 41 | empty |
| 2 | 193 | 0.49 | 0.76 | 34 | empty |
| 3 | 63 | 0.33 | 0.77 | 11 | empty |
| 4 | 62 | 0.28 | 0.74 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 420 Ų buried · 10 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 Q86UW9
- Elsewhere: RCSB PDB 6Y2X · PDBe 6Y2X · UniProt Q86UW9
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