MolNFT v2 · #229134 · protein
Human VANGL1 hexamer
9JK6 · Vang-like protein 1: “Human VANGL1 hexamer”. Electron microscopy at 3.0, 20 pockets (best druggability 0.85). MolNFT v2 #229134 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 9JK6
- Type
- protein
- Length
- 2,256 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.0
- Source
- Homo sapiens
- Molecule
- Vang-like protein 1
- UniProt
- Q8TAA9
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · resolution 3.0 · 1 distinct chain · 56% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Vang-like protein 1 | protein | 376 | 56% helix, 12% strand | Q8TAA9 |
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 | 1120 | 0.85 | 0.86 | 103 | empty |
| 2 | 1128 | 0.85 | 0.85 | 108 | empty |
| 3 | 260 | 0.81 | 0.93 | 31 | empty |
| 4 | 256 | 0.80 | 0.92 | 30 | empty |
| 5 | 827 | 0.77 | 0.81 | 57 | empty |
Interfaces
12 interfaces between chains.
- D–E · 4514 Ų buried · 37 hydrogen bonds · protein-protein
- A–C · 4491 Ų buried · 33 hydrogen bonds · protein-protein
- E–F · 4487 Ų buried · 34 hydrogen bonds · protein-protein
- B–C · 4468 Ų buried · 34 hydrogen bonds · protein-protein
- A–B · 4466 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- Q8TAA9 · AlphaFold monomer V2.0 prediction for vang-like protein 1 (Q8TAA9) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 Q8TAA9
- Elsewhere: RCSB PDB 9JK6 · PDBe 9JK6 · UniProt Q8TAA9
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