Research workbench
Crystal structure of SAS5 yeats domain in complex with H3K27BZ peptide
Analyse Crystal structure of SAS5 yeats domain in complex with H3K27BZ peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7F5M
- Type
- protein
- Length
- 281 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Something about silencing protein 5; Lys-gln-leu-ala-ser-lys-ala-ala-arg-lbz-ser-ala-pro-s…
- UniProt
- Q99314
- Pockets
- 1 · best druggability 0.56
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Something about silencing protein 5 | protein | 139 | 7% helix, 52% strand | Q99314 |
| B | Something about silencing protein 5 | protein | 122 | 7% helix, 51% strand | Q99314 |
| C | Lys-gln-leu-ala-ser-lys-ala-ala-arg-lbz-ser-ala-pro-ser- thr-gly-gly-val-lys-tyr | protein | 20 | 20% helix, 5% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · 6 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 314 | 0.56 | 0.76 | 32 | empty |
Interfaces
3 interfaces between chains.
- A–C · 812 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 318 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 50 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 1 modified (nonstandard).
Compared structures
- 7F5M · Crystal structure of Sas5 YEATS domain in complex with H3K27bz peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q99314 · AlphaFold monomer V2.0 prediction for something about silencing protein 5 (Q99314) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q99314
- Elsewhere: RCSB PDB 7F5M · PDBe 7F5M · UniProt Q99314
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.