Research workbench
Dech box helicase domain
Analyse Dech box helicase domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ON9
- Type
- protein
- Length
- 1,009 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable ATP-dependent RNA helicase DDX58
- EC
- 3.6.4.13
- UniProt
- O95786
- Ligands
- SO4, CL
- Pockets
- 14 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 56% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable ATP-dependent RNA helicase DDX58 (EC 3.6.4.13) | protein | 514 | 54% helix, 13% strand | O95786 |
| B | Probable ATP-dependent RNA helicase DDX58 (EC 3.6.4.13) | protein | 495 | 58% helix, 12% strand | O95786 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 771 | 0.76 | 0.81 | 93 | empty |
| 2 | 715 | 0.75 | 0.80 | 95 | CL |
| 3 | 404 | 0.67 | 0.79 | 41 | SO4 |
| 4 | 223 | 0.61 | 0.81 | 29 | SO4 |
| 5 | 100 | 0.51 | 0.82 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 2532 Ų buried · 28 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 O95786
- Elsewhere: RCSB PDB 4ON9 · PDBe 4ON9 · UniProt O95786
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