MolNFT v1 · #171830 · protein + DNA
Cryo-EM structure of the regulatory linker of ALC1 bound to the NUCLEOSOME'S acidic patch: hexasome class.
6ZHY · Histone H3: “Cryo-EM structure of the regulatory linker of ALC1 bound to the NUCLEOSOME'S acidic patch: hexasome class.”. Electron microscopy, 20 pockets (best druggability 0.79). MolNFT v1 #171830 on GenesisL1: 3D structure…
- PDB
- 6ZHY
- Type
- protein + DNA
- Length
- 782 residues
- Chains
- 9
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3; Histone H4; Histone H2A type 1; Histone H2B 1.1; DNA (110-mer) widom 601…
- EC
- 3.6.4.12
- UniProt
- A0A310TTQ1, P62799, P06897, P02281, Q86WJ1
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 9 distinct chains · 65% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone H3 | protein | 97 | 68% helix, 4% strand | A0A310TTQ1 |
| B | Histone H4 | protein | 84 | 61% helix, 5% strand | P62799 |
| C | Histone H2A type 1 | protein | 105 | 57% helix, 6% strand | P06897 |
| D | Histone H2B 1.1 | protein | 95 | 74% helix, 4% strand | P02281 |
| E | Histone H3 | protein | 98 | 67% helix, 4% strand | A0A310TTQ1 |
| F | Histone H4 | protein | 79 | 63% helix, 8% strand | P62799 |
| I | DNA (110-mer) widom 601 sequence | dna | 110 | — | — |
| J | DNA (110-mer) widom 601 sequence | dna | 110 | — | — |
| K | Chromodomain-helicase-DNA-binding protein 1-like (EC 3.6.4.12) | protein | 4 | 0% helix, 0% strand | Q86WJ1 |
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1014 | 0.79 | 0.81 | 85 | empty |
| 2 | 796 | 0.70 | 0.77 | 56 | empty |
| 3 | 251 | 0.66 | 0.84 | 34 | empty |
| 4 | 476 | 0.63 | 0.77 | 32 | empty |
| 5 | 487 | 0.62 | 0.76 | 32 | empty |
Interfaces
24 interfaces between chains.
- I–J · 4990 Ų buried · 412 hydrogen bonds · nucleic-nucleic
- A–B · 2619 Ų buried · 22 hydrogen bonds · protein-protein
- C–D · 2554 Ų buried · 19 hydrogen bonds · protein-protein
- E–F · 2498 Ų buried · 24 hydrogen bonds · protein-protein
- C–E · 761 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6ZHY · Cryo-EM structure of the regulatory linker of ALC1 bound to the nucleosome's acidic… · the same entry in another collection · chain K against K, TM-score 1.00
- P62799 · AlphaFold monomer V2.0 prediction for histone H4 (P62799) · a predicted model of the same protein · chain F against A, TM-score 0.98
- P06897 · AlphaFold monomer V2.0 prediction for histone H2A type 1 (P06897) · a predicted model of the same protein · chain C 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 A0A310TTQ1
- Every structure of UniProt P62799
- Every structure of UniProt P06897
- Every structure of UniProt P02281
- Every structure of UniProt Q86WJ1
- Elsewhere: RCSB PDB 6ZHY · PDBe 6ZHY · UniProt A0A310TTQ1 · UniProt P62799 · UniProt P06897 · UniProt P02281 · UniProt Q86WJ1
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