MolNFT v1 · #162896 · protein
Crystal structure of TOPBP1 BRCT0,1,2 in complex with a 53BP1 phosphopeptide
6RML · DNA topoisomerase 2-binding protein 1: “Crystal structure of TOPBP1 BRCT0,1,2 in complex with a 53BP1 phosphopeptide”. X-ray diffraction, 8 pockets (best druggability 0.71). MolNFT v1 #162896 on GenesisL1: 3D structure, binding…
- PDB
- 6RML
- Type
- protein
- Length
- 565 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA topoisomerase 2-binding protein 1; 53BP1
- UniProt
- Q92547
- Pockets
- 8 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | DNA topoisomerase 2-binding protein 1 | protein | 278 | 41% helix, 16% strand | Q92547 |
| C | 53BP1 | protein | 9 | 0% helix, 22% strand | — |
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 712 | 0.71 | 0.78 | 60 | empty |
| 2 | 86 | 0.47 | 0.81 | 13 | empty |
| 3 | 70 | 0.45 | 0.82 | 18 | empty |
| 4 | 79 | 0.44 | 0.80 | 19 | empty |
| 5 | 122 | 0.43 | 0.77 | 20 | empty |
Interfaces
2 interfaces between chains.
- B–C · 506 Ų buried · 15 hydrogen bonds · protein-protein
- B–A · 360 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 6RML · Crystal structure of TOPBP1 BRCT0,1,2 in complex with a 53BP1 phosphopeptide · the same entry in another collection · chain B against B, 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 B against A, TM-score 0.94
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
- Elsewhere: RCSB PDB 6RML · PDBe 6RML · UniProt Q92547
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.