Research workbench
Cystal structure of the DPY30 for MLL/SET1 compass H3K4 trimethylation
Analyse Cystal structure of the DPY30 for MLL/SET1 compass H3K4 trimethylation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4RTA
- Type
- protein
- Length
- 129 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein dpy-30 homolog
- UniProt
- Q9C005
- Pockets
- 1 · best druggability 0.30
Structure
x-ray diffraction · 2 distinct chains · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein dpy-30 homolog | protein | 58 | 66% helix, 0% strand | Q9C005 |
| B | Protein dpy-30 homolog | protein | 71 | 63% helix, 0% strand | Q9C005 |
Ligands and binding sites
- FMT · Formic acid · additive · 3 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 70 | 0.30 | 0.73 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1255 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 4RTA · Cystal structure of the Dpy30 for MLL/SET1 COMPASS H3K4 trimethylation · the same entry in another collection · chain A against A, TM-score 1.00
- Q9C005 · AlphaFold monomer V2.0 prediction for protein dpy-30 homolog (Q9C005) · a predicted model of the same protein · chain A against A, TM-score 0.88
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 Q9C005
- Elsewhere: RCSB PDB 4RTA · PDBe 4RTA · UniProt Q9C005
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