Research workbench
Crystal structure of BRCT7/8 in complex with the aps motif of PHF8
Analyse Crystal structure of BRCT7/8 in complex with the aps motif of PHF8 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CMZ
- Type
- protein
- Length
- 232 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA topoisomerase 2-binding protein 1; Histone lysine demethylase PHF8
- EC
- 1.14.11.27, 1.14.11.65
- UniProt
- Q92547, Q9UPP1
- Ligands
- K, NA
- Pockets
- 1 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA topoisomerase 2-binding protein 1 | protein | 217 | 45% helix, 14% strand | Q92547 |
| B | Histone lysine demethylase PHF8 (EC 1.14.11.27, 1.14.11.65) | protein | 15 | 27% helix, 0% strand | Q9UPP1 |
Ligands and binding sites
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 | 109 | 0.51 | 0.82 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 872 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7CMZ · Crystal Structure of BRCT7/8 in Complex with the APS Motif of PHF8 · the same entry in another collection · chain A against A, TM-score 1.00
- Q92547 · AlphaFold monomer V2.0 prediction for DNA topoisomerase 2-binding protein 1 (Q92547) · a predicted model of the same protein · chain A against A, TM-score 0.94
- Q9UPP1 · AlphaFold monomer V2.0 prediction for histone lysine demethylase PHF8 (Q9UPP1) · a predicted model of the same protein · chain B against A, TM-score 0.37
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 Q92547
- Every structure of UniProt Q9UPP1
- Elsewhere: RCSB PDB 7CMZ · PDBe 7CMZ · UniProt Q92547 · UniProt Q9UPP1
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