MolNFT v1 · #180994 · protein + DNA
Crystal structure of BRPF2 pwwp domain in complex with DNA
7LH9 · Bromodomain-containing protein 1: “Crystal structure of BRPF2 pwwp domain in complex with DNA”. X-ray diffraction, 9 pockets (best druggability 0.47). MolNFT v1 #180994 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7LH9
- Type
- protein + DNA
- Length
- 548 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bromodomain-containing protein 1; DNA
- UniProt
- O95696
- Pockets
- 9 · best druggability 0.47
Structure
x-ray diffraction · 5 distinct chains · 37% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bromodomain-containing protein 1 | protein | 112 | 38% helix, 21% strand | O95696 |
| B | Bromodomain-containing protein 1 | protein | 117 | 34% helix, 24% strand | O95696 |
| C | Bromodomain-containing protein 1 | protein | 107 | 41% helix, 22% strand | O95696 |
| D | Bromodomain-containing protein 1 | protein | 116 | 37% helix, 19% strand | O95696 |
| E, F, G, H, I, J, K, L | DNA | dna | 12 | — | — |
Pockets
9 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 143 | 0.47 | 0.77 | 36 | empty |
| 2 | 209 | 0.46 | 0.74 | 27 | empty |
| 3 | 60 | 0.39 | 0.80 | 16 | empty |
| 4 | 159 | 0.39 | 0.72 | 19 | empty |
| 5 | 76 | 0.32 | 0.74 | 17 | empty |
Interfaces
16 interfaces between chains.
- K–L · 555 Ų buried · 51 hydrogen bonds · nucleic-nucleic
- E–F · 553 Ų buried · 62 hydrogen bonds · nucleic-nucleic
- G–H · 544 Ų buried · 61 hydrogen bonds · nucleic-nucleic
- I–J · 536 Ų buried · 51 hydrogen bonds · nucleic-nucleic
- A–B · 330 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7LH9 · Crystal structure of BRPF2 PWWP domain in complex with DNA · the same entry in another collection · chain L against L, TM-score 1.00
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 O95696
- Elsewhere: RCSB PDB 7LH9 · PDBe 7LH9 · UniProt O95696
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