MolNFT v1 · #120459 · protein
Eed in complex with PRC2 allosteric inhibitor EED396
5H13 · Polycomb protein eed: “Eed in complex with PRC2 allosteric inhibitor EED396”. X-ray diffraction, 2 ligands (LQA, PR), 4 pockets (best druggability 0.77). MolNFT v1 #120459 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5H13
- Type
- protein
- Length
- 361 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polycomb protein eed
- UniProt
- O75530
- Ligands
- LQA, PR
- Pockets
- 4 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polycomb protein eed | protein | 361 | 7% helix, 47% strand | O75530 |
Ligands and binding sites
- LQA · 4-azanylidene-2-(3-methoxy-4-propan-2-yloxy-phenyl)-6,7-dihydro-[1,3]benzodioxolo[6,5-a]quinolizine-3-carbonitrile · ligand · chains A
- PR · Praseodymium ion · metal · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 358 | 0.77 | 0.88 | 38 | empty |
| 2 | 91 | 0.56 | 0.86 | 13 | LQA |
| 3 | 67 | 0.35 | 0.77 | 16 | empty |
| 4 | 94 | 0.34 | 0.73 | 18 | GOL |
Compared structures
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 O75530
- Elsewhere: RCSB PDB 5H13 · PDBe 5H13 · UniProt O75530
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