Research workbench
AFTMEM16 lipid scramblase in C18 lipid nanodiscs in the absence of CA2+
Analyse AFTMEM16 lipid scramblase in C18 lipid nanodiscs in the absence of CA2+ in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RXB
- Type
- protein
- Length
- 1,096 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- AFTMEM16 lipid scramblase
- UniProt
- Q4WA18
- Ligands
- PGW
- Pockets
- 15 · best druggability 0.78
Structure
electron microscopy · 1 distinct chain · 55% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | AFTMEM16 lipid scramblase | protein | 548 | 55% helix, 5% strand | Q4WA18 |
Ligands and binding sites
- PGW · (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy) phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate · ligand · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 523 | 0.78 | 0.85 | 47 | empty |
| 2 | 516 | 0.77 | 0.85 | 51 | empty |
| 3 | 735 | 0.73 | 0.78 | 68 | empty |
| 4 | 614 | 0.71 | 0.78 | 64 | empty |
| 5 | 368 | 0.55 | 0.74 | 51 | PGW |
Interfaces
1 interface between chains.
- A–B · 2236 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 7RXB · afTMEM16 lipid scramblase in C18 lipid nanodiscs in the absence of Ca2+ · 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 Q4WA18
- Elsewhere: RCSB PDB 7RXB · PDBe 7RXB · UniProt Q4WA18
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.