Research workbench
Cryo-EM structure of hDisp1NNN-3C-Cleavage
Analyse Cryo-EM structure of hDisp1NNN-3C-Cleavage in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E2H
- Type
- protein
- Length
- 907 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.68
- Source
- Homo sapiens
- Molecule
- Protein dispatched homolog 1
- UniProt
- Q96F81
- Ligands
- Y01, NAG
- Pockets
- 14 · best druggability 0.73
Structure
electron microscopy · resolution 3.68 · 2 distinct chains · 53% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | Protein dispatched homolog 1 | protein | 83 | 52% helix, 0% strand | Q96F81 |
| E | Protein dispatched homolog 1 | protein | 824 | 53% helix, 5% strand | Q96F81 |
Ligands and binding sites
- Y01 · Cholesterol hemisuccinate · ligand · 8 copies · chains E, D
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 272 | 0.73 | 0.86 | 41 | empty |
| 2 | 200 | 0.65 | 0.84 | 27 | empty |
| 3 | 150 | 0.63 | 0.85 | 20 | empty |
| 4 | 147 | 0.62 | 0.85 | 28 | empty |
| 5 | 161 | 0.58 | 0.82 | 34 | empty |
Interfaces
1 interface between chains.
- D–E · 3264 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 glycan (N-glycosylation).
Compared structures
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 Q96F81
- Elsewhere: RCSB PDB 7E2H · PDBe 7E2H · UniProt Q96F81
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