MolNFT v1 · #103990 · protein
Dead-box RNA helicase DDX3X cancer-associated mutant D354V
4PXA · ATP-dependent RNA helicase DDX3X: “Dead-box RNA helicase DDX3X cancer-associated mutant D354V”. X-ray diffraction, 2 ligands (ADP, PO4), 7 pockets (best druggability 0.75). MolNFT v1 #103990 on GenesisL1: 3D structure, binding sites…
- PDB
- 4PXA
- Type
- protein
- Length
- 442 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent RNA helicase DDX3X
- EC
- 3.6.4.13
- UniProt
- O00571
- Ligands
- ADP, PO4
- Pockets
- 7 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP-dependent RNA helicase DDX3X (EC 3.6.4.13) | protein | 442 | 40% helix, 15% strand | O00571 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 560 | 0.75 | 0.82 | 78 | ADP |
| 2 | 245 | 0.56 | 0.78 | 32 | PO4 |
| 3 | 198 | 0.51 | 0.77 | 18 | empty |
| 4 | 61 | 0.35 | 0.77 | 13 | empty |
| 5 | 60 | 0.32 | 0.76 | 19 | PO4 |
Compared structures
- 4PXA · DEAD-box RNA helicase DDX3X Cancer-associated mutant D354V · the same entry in another collection · chain A against A, TM-score 1.00
- O00571 · AlphaFold monomer V2.0 prediction for ATP-dependent RNA helicase DDX3X (O00571) · a predicted model of the same protein · chain A against A, TM-score 0.75
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 O00571
- Elsewhere: RCSB PDB 4PXA · PDBe 4PXA · UniProt O00571
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