MolNFT v1 · #103282 · protein
Structure of the human RBAP48-MTA1(670-711) complex
4PC0 · Histone-binding protein RBBP4: “Structure of the human RBAP48-MTA1(670-711) complex”. X-ray diffraction, 1 ligand (CA), 11 pockets (best druggability 0.79). MolNFT v1 #103282 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 4PC0
- Type
- protein
- Length
- 846 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone-binding protein RBBP4; Metastasis-associated protein MTA1
- UniProt
- Q09028, Q13330
- Ligands
- CA
- Pockets
- 11 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 10% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone-binding protein RBBP4 | protein | 402 | 9% helix, 43% strand | Q09028 |
| B | Histone-binding protein RBBP4 | protein | 404 | 9% helix, 42% strand | Q09028 |
| C, D | Metastasis-associated protein MTA1 | protein | 20 | 40% helix, 0% strand | Q13330 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1038 | 0.79 | 0.81 | 71 | empty |
| 2 | 433 | 0.75 | 0.84 | 30 | empty |
| 3 | 457 | 0.75 | 0.83 | 31 | empty |
| 4 | 303 | 0.56 | 0.76 | 42 | empty |
| 5 | 267 | 0.53 | 0.75 | 37 | empty |
Interfaces
3 interfaces between chains.
- A–C · 953 Ų buried · 18 hydrogen bonds · protein-protein
- B–D · 926 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 452 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4PC0 · Structure of the human RbAp48-MTA1(670-711) complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q09028 · AlphaFold monomer V2.0 prediction for histone-binding protein RBBP4 (Q09028) · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q13330 · AlphaFold monomer V2.0 prediction for metastasis-associated protein MTA1 (Q13330) · a predicted model of the same protein · chain C against A, TM-score 0.55
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 Q09028
- Every structure of UniProt Q13330
- Elsewhere: RCSB PDB 4PC0 · PDBe 4PC0 · UniProt Q09028 · UniProt Q13330
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