MolNFT v1 · #176108 · protein + DNA
Linker histone defines structure and self-association behaviour of the 177 bp human chromosome
7DBP · Histone H1.0: “Linker histone defines structure and self-association behaviour of the 177 bp human chromosome”. Electron microscopy, 20 pockets (best druggability 0.77). MolNFT v1 #176108 on GenesisL1: 3D structure, binding sites…
- PDB
- 7DBP
- Type
- protein + DNA
- Length
- 1,187 residues
- Chains
- 11
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H1.0; Histone H3.1; Histone H4; Histone H2A type 1-B/E; Histone H2B type 1-K; DNA…
- UniProt
- P07305, P68431, P62805, P04908, O60814
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 10 distinct chains · 60% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| K | Histone H1.0 | protein | 77 | 49% helix, 12% strand | P07305 |
| A | Histone H3.1 | protein | 98 | 62% helix, 1% strand | P68431 |
| B, F | Histone H4 | protein | 83 | 63% helix, 4% strand | P62805 |
| C | Histone H2A type 1-B/E | protein | 105 | 53% helix, 6% strand | P04908 |
| D | Histone H2B type 1-K | protein | 95 | 69% helix, 4% strand | O60814 |
| E | Histone H3.1 | protein | 97 | 63% helix, 2% strand | P68431 |
| G | Histone H2A type 1-B/E | protein | 103 | 54% helix, 6% strand | P04908 |
| H | Histone H2B type 1-K | protein | 96 | 69% helix, 4% strand | O60814 |
| I | DNA (175-mer) | dna | 175 | — | — |
| J | DNA (175-mer) | dna | 175 | — | — |
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 | 630 | 0.77 | 0.83 | 62 | empty |
| 2 | 775 | 0.76 | 0.81 | 59 | empty |
| 3 | 583 | 0.75 | 0.82 | 59 | empty |
| 4 | 793 | 0.73 | 0.79 | 58 | empty |
| 5 | 476 | 0.70 | 0.81 | 39 | empty |
Interfaces
38 interfaces between chains.
- I–J · 7501 Ų buried · 360 hydrogen bonds · nucleic-nucleic
- A–B · 2501 Ų buried · 8 hydrogen bonds · protein-protein
- E–F · 2457 Ų buried · 10 hydrogen bonds · protein-protein
- G–H · 2414 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 2410 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7DBP · Linker histone defines structure and self-association behaviour of the 177 bp human… · the same entry in another collection · chain J against J, TM-score 1.00
- P68431 · AlphaFold monomer V2.0 prediction for histone H3.1 (P68431) · a predicted model of the same protein · chain E against A, TM-score 0.93
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 P07305
- Every structure of UniProt P68431
- Every structure of UniProt P62805
- Every structure of UniProt P04908
- Every structure of UniProt O60814
- Elsewhere: RCSB PDB 7DBP · PDBe 7DBP · UniProt P07305 · UniProt P68431 · UniProt P62805 · UniProt P04908 · UniProt O60814
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