Research workbench
Cryo-EM structure of a chromatosome containing chimeric linker histone GH1.10-NCH1.4
Analyse Cryo-EM structure of a chromatosome containing chimeric linker histone… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7K63
- Type
- protein + DNA
- Length
- 1,692 residues
- Chains
- 13
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3.1; Histone H4; Histone H2A type 1-B/E; Histone H2B type 1-J; DNA (197-mer)…
- UniProt
- P68431, P62805, P04908, P06899
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 8 distinct chains · 42% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | Histone H3.1 | protein | 97 | 65% helix, 4% strand | P68431 |
| B, F | Histone H4 | protein | 83 | 60% helix, 7% strand | P62805 |
| C, G | Histone H2A type 1-B/E | protein | 109 | 54% helix, 6% strand | P04908 |
| D, H | Histone H2B type 1-J | protein | 95 | 74% helix, 4% strand | P06899 |
| I | DNA (197-mer) | dna | 197 | — | — |
| J | DNA (197-mer) | dna | 197 | — | — |
| M, N | SCFV20 | protein | 227 | 5% helix, 52% strand | — |
| U | GH1.10-NCH1.4 | protein | 76 | 46% helix, 12% strand | — |
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 | 751 | 0.80 | 0.84 | 69 | empty |
| 2 | 755 | 0.78 | 0.83 | 81 | empty |
| 3 | 328 | 0.74 | 0.86 | 36 | empty |
| 4 | 207 | 0.72 | 0.89 | 32 | empty |
| 5 | 179 | 0.72 | 0.90 | 32 | empty |
Interfaces
41 interfaces between chains.
- I–J · 8896 Ų buried · 683 hydrogen bonds · nucleic-nucleic
- E–F · 2569 Ų buried · 21 hydrogen bonds · protein-protein
- C–D · 2565 Ų buried · 20 hydrogen bonds · protein-protein
- G–H · 2558 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 2549 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 7K63 · Cryo-EM structure of a chromatosome containing chimeric linker histone gH1.10-ncH1.4 · the same entry in another collection · chain U against U, 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 P68431
- Every structure of UniProt P62805
- Every structure of UniProt P04908
- Every structure of UniProt P06899
- Elsewhere: RCSB PDB 7K63 · PDBe 7K63 · UniProt P68431 · UniProt P62805 · UniProt P04908 · UniProt P06899
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