Research workbench
SynGAP Coiled-coil trimer
Analyse SynGAP Coiled-coil trimer in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JXC
- Type
- protein
- Length
- 484 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.5
- Source
- Mus musculus
- Molecule
- Ras/Rap GTPase-activating protein SynGAP
- UniProt
- A0A0J9YUM2
- Pockets
- 3 · best druggability 0.59
Structure
x-ray diffraction · resolution 2.5 · 5 distinct chains · 96% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ras/Rap GTPase-activating protein SynGAP | protein | 86 | 97% helix, 0% strand | A0A0J9YUM2 |
| B | Ras/Rap GTPase-activating protein SynGAP | protein | 78 | 97% helix, 0% strand | A0A0J9YUM2 |
| C, D | Ras/Rap GTPase-activating protein SynGAP | protein | 78 | 97% helix, 0% strand | A0A0J9YUM2 |
| E | Ras/Rap GTPase-activating protein SynGAP | protein | 84 | 95% helix, 0% strand | A0A0J9YUM2 |
| F | Ras/Rap GTPase-activating protein SynGAP | protein | 80 | 94% helix, 0% strand | A0A0J9YUM2 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.59 | 0.90 | 14 | empty |
| 2 | 71 | 0.57 | 0.88 | 16 | empty |
| 3 | 58 | 0.35 | 0.78 | 14 | empty |
Interfaces
9 interfaces between chains.
- E–F · 1624 Ų buried · 15 hydrogen bonds · protein-protein
- D–E · 1602 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 1544 Ų buried · 12 hydrogen bonds · protein-protein
- D–F · 1509 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1499 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5JXC · Syngap coiled-coil trimer · the same entry in another collection · chain A against A, 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 A0A0J9YUM2
- Elsewhere: RCSB PDB 5JXC · PDBe 5JXC · UniProt A0A0J9YUM2
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