MolNFT v1 · #58561 · protein
Human dead-box RNA helicase DDX20, conserved domain I (dead) in complex with amppnp (adenosine-(BETA,GAMMA)-imidotriphosphate)
3B7G · Probable ATP-dependent RNA helicase DDX20: “Human dead-box RNA helicase DDX20, conserved domain I (dead) in complex with amppnp…”. X-ray diffraction, 1 ligand (ANP), 1 pocket (best druggability 0.64). MolNFT v1 #58561 on GenesisL1…
- PDB
- 3B7G
- Type
- protein
- Length
- 410 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable ATP-dependent RNA helicase DDX20
- EC
- 3.6.1.-
- UniProt
- Q9UHI6
- Ligands
- ANP
- Pockets
- 1 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Probable ATP-dependent RNA helicase DDX20 (EC 3.6.1.-) | protein | 205 | 45% helix, 15% strand | Q9UHI6 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 620 | 0.64 | 0.75 | 59 | empty |
Interfaces
1 interface between chains.
- A–B · 271 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3B7G · Human DEAD-box RNA helicase DDX20, Conserved domain I (DEAD) in complex with AMPPNP… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UHI6 · AlphaFold monomer V2.0 prediction for probable ATP-dependent RNA helicase DDX20 (Q9UHI6) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q9UHI6
- Elsewhere: RCSB PDB 3B7G · PDBe 3B7G · UniProt Q9UHI6
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