Research workbench
Core domain of the class I small heat-shock protein HSP 18.1 from pisum sativum
Analyse Core domain of the class I small heat-shock protein HSP 18.1 from pisum sativum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DS2
- Type
- protein
- Length
- 564 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 18.1 kda class I heat shock protein
- UniProt
- P19243
- Ligands
- SO4
- Pockets
- 11 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | 18.1 kda class I heat shock protein | protein | 94 | 6% helix, 53% strand | P19243 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 17 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 731 | 0.84 | 0.88 | 95 | SO4 |
| 2 | 306 | 0.75 | 0.87 | 43 | empty |
| 3 | 465 | 0.71 | 0.82 | 60 | SO4 |
| 4 | 247 | 0.65 | 0.83 | 30 | SO4 |
| 5 | 171 | 0.63 | 0.85 | 29 | SO4 |
Interfaces
12 interfaces between chains.
- A–B · 1642 Ų buried · 41 hydrogen bonds · protein-protein
- E–F · 1626 Ų buried · 40 hydrogen bonds · protein-protein
- C–D · 1531 Ų buried · 40 hydrogen bonds · protein-protein
- D–F · 628 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 612 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 5DS2 · Core domain of the class I small heat-shock protein HSP 18.1 from Pisum sativum · the same entry in another collection · chain C against C, TM-score 1.00
- P19243 · AlphaFold monomer V2.0 prediction for 18.1 kda class I heat shock protein (P19243) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P19243
- Elsewhere: RCSB PDB 5DS2 · PDBe 5DS2 · UniProt P19243
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.