MolNFT v1 · #116712 · protein
First domain of human bromodomain BRD4 in complex with inhibitor 4- [(1-methyl-2-oxo-1,2-dihydroquinolin-4-YL)OXY]-N-({1-[(3-methylphe METHYL]PIPERIDIN-4-YL}METHYL)BUTANAMIDE
5DLZ · Bromodomain-containing protein 4: “First domain of human bromodomain BRD4 in complex with inhibitor 4…”. X-ray diffraction, 1 ligand (5D1), 1 pocket (best druggability 0.57). MolNFT v1 #116712 on GenesisL1: 3D structure, binding…
- PDB
- 5DLZ
- Type
- protein
- Length
- 127 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bromodomain-containing protein 4
- UniProt
- O60885
- Ligands
- 5D1
- Pockets
- 1 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bromodomain-containing protein 4 | protein | 127 | 53% helix, 0% strand | O60885 |
Ligands and binding sites
- 5D1 · N-{[1-(3-methylbenzyl)piperidin-4-yl]methyl}-4-[(1-methyl-2-oxo-1,2-dihydroquinolin-4-yl)oxy]butanamide · ligand · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 113 | 0.57 | 0.84 | 24 | 5D1 |
Compared structures
- 5DLZ · FIRST DOMAIN OF HUMAN BROMODOMAIN BRD4 IN COMPLEX WITH INHIBITOR… · the same entry in another collection · chain A against A, TM-score 1.00
- O60885 · AlphaFold monomer V2.0 prediction for bromodomain-containing protein 4 (O60885) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 O60885
- Elsewhere: RCSB PDB 5DLZ · PDBe 5DLZ · UniProt O60885
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