MolNFT v1 · #116250 · protein
Crystal structure of the human BRPF1 bromodomain in complex with XZ08
5D7X · Peregrin: “Crystal structure of the human BRPF1 bromodomain in complex with XZ08”. X-ray diffraction, 2 ligands (XZ8, NO3), 1 pocket (best druggability 0.48). MolNFT v1 #116250 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5D7X
- Type
- protein
- Length
- 115 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peregrin
- UniProt
- P55201
- Ligands
- XZ8, NO3
- Pockets
- 1 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peregrin | protein | 115 | 64% helix, 0% strand | P55201 |
Ligands and binding sites
- XZ8 · 4-(1-acetyl-1H-indol-3-yl)-5-methyl-1,2-dihydro-3H-pyrazol-3-one · ligand · chains A
- NO3 · Nitrate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 89 | 0.48 | 0.81 | 20 | XZ8 |
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 P55201
- Elsewhere: RCSB PDB 5D7X · PDBe 5D7X · UniProt P55201
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