Research workbench
Crystal structure of an active polycomb repressive complex 2 in the basal state
Analyse Crystal structure of an active polycomb repressive complex 2 in the basal state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5KJI
- Type
- protein
- Length
- 1,240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative polycomb protein eed; Putative uncharacterized PROTEIN,ZINC finger domain…
- UniProt
- G0S8H7, G0SDW4, G0RYC6
- Ligands
- SAH, ZN
- Pockets
- 15 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 27% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative polycomb protein eed | protein | 479 | 9% helix, 39% strand | G0S8H7 |
| B | Putative uncharacterized PROTEIN,ZINC finger domain- containing protein | protein | 761 | 38% helix, 13% strand | G0SDW4, G0RYC6 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 689 | 0.86 | 0.90 | 57 | empty |
| 2 | 495 | 0.84 | 0.90 | 71 | empty |
| 3 | 1126 | 0.78 | 0.80 | 93 | SAH |
| 4 | 686 | 0.76 | 0.81 | 73 | empty |
| 5 | 914 | 0.73 | 0.77 | 85 | empty |
Interfaces
1 interface between chains.
- A–B · 5242 Ų buried · 68 hydrogen bonds · protein-protein
Compared structures
- 5KJI · Crystal structure of an active polycomb repressive complex 2 in the basal state · the same entry in another collection · chain A against A, 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 G0S8H7
- Every structure of UniProt G0SDW4
- Every structure of UniProt G0RYC6
- Elsewhere: RCSB PDB 5KJI · PDBe 5KJI · UniProt G0S8H7 · UniProt G0SDW4 · UniProt G0RYC6
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