Research workbench
Structure of poxvirus K7 protein in complex with RNA helicase DDX3
Analyse Structure of poxvirus K7 protein in complex with RNA helicase DDX3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JRV
- Type
- protein
- Length
- 307 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein K7; ATP-dependent RNA helicase DDX3X
- EC
- 3.6.1.-
- UniProt
- P68466, O00571
- Pockets
- 2 · best druggability 0.78
Structure
x-ray diffraction · 5 distinct chains · 62% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein K7 | protein | 142 | 67% helix, 0% strand | P68466 |
| B | Protein K7 | protein | 144 | 67% helix, 1% strand | P68466 |
| C | ATP-dependent RNA helicase DDX3X (EC 3.6.1.-) | protein | 9 | 0% helix, 0% strand | O00571 |
| D | ATP-dependent RNA helicase DDX3X (EC 3.6.1.-) | protein | 7 | 0% helix, 0% strand | O00571 |
| E | ATP-dependent RNA helicase DDX3X (EC 3.6.1.-) | protein | 5 | 0% helix, 20% strand | O00571 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 763 | 0.78 | 0.82 | 54 | empty |
| 2 | 71 | 0.38 | 0.78 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–B · 757 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 682 Ų buried · 16 hydrogen bonds · protein-protein
- B–D · 670 Ų buried · 15 hydrogen bonds · protein-protein
- B–E · 230 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 3JRV · Structure of poxvirus K7 protein in complex with RNA helicase DDX3 · the same entry in another collection · chain E against E, 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 E against A, TM-score 0.76
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 P68466
- Every structure of UniProt O00571
- Elsewhere: RCSB PDB 3JRV · PDBe 3JRV · UniProt P68466 · UniProt O00571
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