Research workbench
The crystal structure of the heterochromatin protein 1 beta chromoshadow domain complexed with a peptide from shugoshin 1
Analyse The crystal structure of the heterochromatin protein 1 beta chromoshadow domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3Q6S
- Type
- protein
- Length
- 292 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chromobox protein homolog 1; Shugoshin-like 1
- UniProt
- P83916, Q5FBB7
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 6 distinct chains · 28% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chromobox protein homolog 1 | protein | 66 | 30% helix, 35% strand | P83916 |
| B | Chromobox protein homolog 1 | protein | 67 | 30% helix, 36% strand | P83916 |
| C | Chromobox protein homolog 1 | protein | 64 | 31% helix, 39% strand | P83916 |
| D | Chromobox protein homolog 1 | protein | 65 | 34% helix, 37% strand | P83916 |
| E | Shugoshin-like 1 | protein | 14 | 0% helix, 64% strand | Q5FBB7 |
| F | Shugoshin-like 1 | protein | 16 | 0% helix, 63% strand | Q5FBB7 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 339 | 0.68 | 0.81 | 39 | empty |
| 2 | 137 | 0.44 | 0.76 | 16 | empty |
| 3 | 160 | 0.43 | 0.74 | 20 | empty |
Interfaces
11 interfaces between chains.
- D–F · 748 Ų buried · 15 hydrogen bonds · protein-protein
- B–E · 686 Ų buried · 11 hydrogen bonds · protein-protein
- A–D · 667 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 650 Ų buried · 5 hydrogen bonds · protein-protein
- A–F · 526 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 3Q6S · The crystal structure of the heterochromatin protein 1 beta chromoshadow domain complexed… · the same entry in another collection · chain F against F, TM-score 1.00
- P83916 · AlphaFold monomer V2.0 prediction for chromobox protein homolog 1 (P83916) · a predicted model of the same protein · chain C against A, TM-score 0.93
- Q5FBB7 · AlphaFold monomer V2.0 prediction for shugoshin 1 (Q5FBB7) · a predicted model of the same protein · chain E against A, TM-score 0.29
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 P83916
- Every structure of UniProt Q5FBB7
- Elsewhere: RCSB PDB 3Q6S · PDBe 3Q6S · UniProt P83916 · UniProt Q5FBB7
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