MolNFT v1 · #35032 · protein
The crystal structure of saccharomyces cerevisiae ATG5- ATG16(1-57) complex
2DYO · Autophagy protein 5: “The crystal structure of saccharomyces cerevisiae ATG5- ATG16(1-57) complex”. X-ray diffraction, 3 pockets (best druggability 0.48). MolNFT v1 #35032 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 2DYO
- Type
- protein
- Length
- 305 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Autophagy protein 5; Autophagy protein 16
- UniProt
- Q12380, Q03818
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Autophagy protein 5 | protein | 269 | 39% helix, 22% strand | Q12380 |
| B | Autophagy protein 16 | protein | 36 | 58% helix, 0% strand | Q03818 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 115 | 0.48 | 0.79 | 23 | empty |
| 2 | 107 | 0.40 | 0.76 | 23 | empty |
| 3 | 99 | 0.40 | 0.77 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1542 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 2DYO · The crystal structure of Saccharomyces cerevisiae Atg5- Atg16(1-57) complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q12380 · AlphaFold monomer V2.0 prediction for autophagy protein 5 (Q12380) · a predicted model of the same protein · chain A against A, TM-score 0.95
- Q03818 · AlphaFold monomer V2.0 prediction for autophagy protein 16 (Q03818) · a predicted model of the same protein · chain B against A, TM-score 0.57
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 Q12380
- Every structure of UniProt Q03818
- Elsewhere: RCSB PDB 2DYO · PDBe 2DYO · UniProt Q12380 · UniProt Q03818
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