MolNFT v1 · #111479 · protein + DNA
Nucleosome disassembly by rsc and SWI/SNF is enhanced by H3 acetylation near the nucleosome dyad axis
4YS3 · Histone H3.2: “Nucleosome disassembly by rsc and SWI/SNF is enhanced by H3 acetylation near the nucleosome dyad axis”. X-ray diffraction, 20 pockets (best druggability 0.81). MolNFT v1 #111479 on GenesisL1: 3D structure, binding…
- PDB
- 4YS3
- Type
- protein + DNA
- Length
- 1,047 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3.2; Histone H4; Histone H2A; Histone H2B 1.1; DNA (147-mer)
- UniProt
- P84233, P62799, Q6AZJ8, P02281
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 7 distinct chains · 62% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | Histone H3.2 | protein | 98 | 63% helix, 4% strand | P84233 |
| B, F | Histone H4 | protein | 79 | 62% helix, 8% strand | P62799 |
| C | Histone H2A | protein | 107 | 57% helix, 6% strand | Q6AZJ8 |
| D, H | Histone H2B 1.1 | protein | 93 | 73% helix, 4% strand | P02281 |
| G | Histone H2A | protein | 106 | 55% helix, 6% strand | Q6AZJ8 |
| I | DNA (147-mer) | dna | 147 | — | — |
| J | DNA (147-mer) | dna | 147 | — | — |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 924 | 0.81 | 0.83 | 96 | empty |
| 2 | 480 | 0.76 | 0.85 | 55 | empty |
| 3 | 360 | 0.75 | 0.86 | 44 | empty |
| 4 | 831 | 0.70 | 0.77 | 46 | empty |
| 5 | 674 | 0.68 | 0.77 | 57 | empty |
Interfaces
39 interfaces between chains.
- I–J · 6441 Ų buried · 569 hydrogen bonds · nucleic-nucleic
- C–D · 2649 Ų buried · 23 hydrogen bonds · protein-protein
- G–H · 2599 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 2534 Ų buried · 20 hydrogen bonds · protein-protein
- E–F · 2503 Ų buried · 24 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (acetylation).
Compared structures
- 4YS3 · Nucleosome disassembly by RSC and SWI/SNF is enhanced by H3 acetylation near the… · the same entry in another collection · chain A against A, 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 P84233
- Every structure of UniProt P62799
- Every structure of UniProt Q6AZJ8
- Every structure of UniProt P02281
- Elsewhere: RCSB PDB 4YS3 · PDBe 4YS3 · UniProt P84233 · UniProt P62799 · UniProt Q6AZJ8 · UniProt P02281
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