MolNFT v1 · #41495 · protein + DNA
Structure of the wilms tumor suppressor protein zinc finger domain bound to DNA
2JP9 · DNA (5'- D(P*DCP*DGP*DCP*DGP*DGP*DGP*DGP*DGP*DCP*DGP*DTP*DCP…: “Structure of the wilms tumor suppressor protein zinc finger domain bound to DNA”. Solution nmr, 1 ligand (ZN), 2 pockets (best druggability 0.63). MolNFT v1 #41495 on…
- PDB
- 2JP9
- Type
- protein + DNA
- Length
- 153 residues
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'- D(P*DCP*DGP*DCP*DGP*DGP*DGP*DGP*DGP*DCP*DGP*DTP*DCP*DTP*DGP*DCP*DGP*D C)-3')…
- UniProt
- Q4VXV4
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.63
Structure
solution nmr · 3 distinct chains · 38% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | DNA (5'- D(P*DCP*DGP*DCP*DGP*DGP*DGP*DGP*DGP*DCP*DGP*DTP*DCP*DTP*DGP*DCP*DGP*D C)-3') | dna | 17 | — | — |
| C | DNA (5'- D(P*DGP*DCP*DGP*DCP*DAP*DGP*DAP*DCP*DGP*DCP*DCP*DCP*DCP*DCP*DGP*DCP*D G)-3') | dna | 17 | — | — |
| A | Wilms tumor 1 | protein | 119 | 38% helix, 12% strand | Q4VXV4 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 82 | 0.63 | 0.90 | 25 | empty |
| 2 | 68 | 0.37 | 0.78 | 17 | empty |
Interfaces
3 interfaces between chains.
- B–A · 1132 Ų buried · 30 hydrogen bonds · protein-nucleic
- C–A · 990 Ų buried · 22 hydrogen bonds · protein-nucleic
- B–C · 792 Ų buried · 84 hydrogen bonds · nucleic-nucleic
Compared structures
- 2JP9 · Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to DNA · the same entry in another collection · chain B against B, TM-score 1.00
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 Q4VXV4
- Elsewhere: RCSB PDB 2JP9 · PDBe 2JP9 · UniProt Q4VXV4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.