Research workbench
Structure of the 4_601_167 tetranucleosome
Analyse Structure of the 4_601_167 tetranucleosome in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZBB
- Type
- protein + DNA
- Length
- 2,282 residues
- Chains
- 18
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA strand 1 (arbitrary model sequence); DNA strand 2 (arbitrary model sequence); Histone…
- UniProt
- P84233, P62799, P06897, P02281
- Pockets
- 20 · best druggability 0.83
Structure
x-ray diffraction · 9 distinct chains · 60% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I | DNA strand 1 (arbitrary model sequence) | dna | 347 | — | — |
| J | DNA strand 2 (arbitrary model sequence) | dna | 347 | — | — |
| A, E, a, e | Histone H3 | protein | 97 | 66% helix, 4% strand | P84233 |
| B, b | Histone H4 | protein | 80 | 63% helix, 9% strand | P62799 |
| C, c | Histone H2A.1 | protein | 111 | 54% helix, 6% strand | P06897 |
| D, d | Histone H2B.1 | protein | 107 | 64% helix, 4% strand | P02281 |
| F, f | Histone H4 | protein | 94 | 53% helix, 7% strand | P62799 |
| G, g | Histone H2A.1 | protein | 109 | 54% helix, 6% strand | P06897 |
| H, h | Histone H2B.1 | protein | 99 | 70% helix, 4% strand | P02281 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1054 | 0.83 | 0.84 | 86 | empty |
| 2 | 575 | 0.80 | 0.86 | 62 | empty |
| 3 | 436 | 0.76 | 0.85 | 48 | empty |
| 4 | 430 | 0.75 | 0.85 | 45 | empty |
| 5 | 339 | 0.75 | 0.86 | 43 | empty |
Interfaces
73 interfaces between chains.
- I–J · 15221 Ų buried · 1,271 hydrogen bonds · nucleic-nucleic
- C–D · 2700 Ų buried · 22 hydrogen bonds · protein-protein
- c–d · 2695 Ų buried · 22 hydrogen bonds · protein-protein
- e–f · 2641 Ų buried · 27 hydrogen bonds · protein-protein
- E–F · 2635 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 1ZBB · Structure of the 4_601_167 Tetranucleosome · the same entry in another collection · chain h against h, 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 P06897
- Every structure of UniProt P02281
- Elsewhere: RCSB PDB 1ZBB · PDBe 1ZBB · UniProt P84233 · UniProt P62799 · UniProt P06897 · UniProt P02281
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.