MolNFT v1 · #71329 · protein
Crystal structure of the fifth bromodomain of human poly-bromodomain containing protein 1 (PB1) with nmp
3MB4 · Protein polybromo-1: “Crystal structure of the fifth bromodomain of human poly-bromodomain containing protein 1 (PB1) with nmp”. X-ray diffraction, 2 ligands (MB3, CL), 1 pocket (best druggability 0.78). MolNFT v1 #71329 on…
- PDB
- 3MB4
- Type
- protein
- Length
- 231 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein polybromo-1
- UniProt
- Q86U86
- Ligands
- MB3, CL
- Pockets
- 1 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 62% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein polybromo-1 | protein | 115 | 63% helix, 2% strand | Q86U86 |
| B | Protein polybromo-1 | protein | 116 | 62% helix, 2% strand | Q86U86 |
Ligands and binding sites
- MB3 · 1-methylpyrrolidin-2-one · ligand · 2 copies · chains A, B
- CL · Chloride ion · ion · 4 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 5 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 | 512 | 0.78 | 0.85 | 67 | EDO, MB3, CL |
Interfaces
1 interface between chains.
- A–B · 816 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3MB4 · Crystal Structure of the fifth Bromodomain of Human Poly-bromodomain containing protein 1… · the same entry in another collection · chain A against A, TM-score 1.00
- Q86U86 · AlphaFold monomer V2.0 prediction for protein polybromo-1 (Q86U86) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q86U86
- Elsewhere: RCSB PDB 3MB4 · PDBe 3MB4 · UniProt Q86U86
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