Research workbench
Solution structures of the double phd fingers of human transcriptional protein DPF3B bound to a H3 peptide wild type
Analyse Solution structures of the double phd fingers of human transcriptional protein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2KWK
- Type
- protein
- Length
- 134 residues
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone peptide; Zinc finger protein DPF3
- UniProt
- Q92784
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.43
Structure
solution nmr · 2 distinct chains · 16% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Histone peptide | protein | 20 | 0% helix, 5% strand | — |
| A | Zinc finger protein DPF3 | protein | 114 | 18% helix, 10% strand | Q92784 |
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
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 86 | 0.43 | 0.79 | 22 | empty |
Interfaces
1 interface between chains.
- B–A · 609 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 2KWK · Solution structures of the double PHD fingers of human transcriptional protein DPF3b… · the same entry in another collection · chain B against B, TM-score 1.00
- Q92784 · AlphaFold monomer V2.0 prediction for zinc finger protein DPF3 (Q92784) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 Q92784
- Elsewhere: RCSB PDB 2KWK · PDBe 2KWK · UniProt Q92784
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