MolNFT v1 · #168783 · protein
Structure of human ATG9A, the only transmembrane protein of the core autophagy machinery
6WQZ · Autophagy-related protein 9A: “Structure of human ATG9A, the only transmembrane protein of the core autophagy machinery”. Electron microscopy, 1 ligand (LMN), 20 pockets (best druggability 0.76). MolNFT v1 #168783 on GenesisL1: 3D…
- PDB
- 6WQZ
- Type
- protein
- Length
- 1,715 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Autophagy-related protein 9A
- UniProt
- Q7Z3C6
- Ligands
- LMN
- Pockets
- 20 · best druggability 0.76
Structure
electron microscopy · 3 distinct chains · 66% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, B, A | Autophagy-related protein 9A | protein | 536 | 65% helix, 3% strand | Q7Z3C6 |
| F | Autophagy-related protein 9A | protein | 35 | 77% helix, 0% strand | Q7Z3C6 |
| E, D | Autophagy-related protein 9A | protein | 36 | 75% helix, 0% strand | Q7Z3C6 |
Ligands and binding sites
- LMN · Lauryl Maltose Neopentyl Glycol · ligand · 6 copies · chains C, B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1042 | 0.76 | 0.78 | 97 | LMN |
| 2 | 957 | 0.75 | 0.78 | 100 | LMN |
| 3 | 897 | 0.75 | 0.78 | 52 | empty |
| 4 | 929 | 0.75 | 0.78 | 57 | empty |
| 5 | 657 | 0.74 | 0.80 | 49 | empty |
Interfaces
12 interfaces between chains.
- B–A · 1662 Ų buried · 4 hydrogen bonds · protein-protein
- C–B · 1661 Ų buried · 4 hydrogen bonds · protein-protein
- C–A · 1661 Ų buried · 3 hydrogen bonds · protein-protein
- C–F · 610 Ų buried · 1 hydrogen bond · protein-protein
- A–E · 610 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6WQZ · Structure of human ATG9A, the only transmembrane protein of the core autophagy machinery · the same entry in another collection · chain D against D, TM-score 1.00
- Q7Z3C6 · AlphaFold monomer V2.0 prediction for autophagy-related protein 9A (Q7Z3C6) · a predicted model of the same protein · chain C 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 Q7Z3C6
- Elsewhere: RCSB PDB 6WQZ · PDBe 6WQZ · UniProt Q7Z3C6
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