Research workbench
Crystal structure of ATG13(17BR)-ATG13(17LR)-ATG17-ATG29-ATG31 complex
Analyse Crystal structure of ATG13(17BR)-ATG13(17LR)-ATG17-ATG29-ATG31 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JHF
- Type
- protein
- Length
- 1,262 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- KLTH0D11660P; KLTH0C07942P; KLTH0D15642P; ATG13 17BR; ATG13 17LR
- UniProt
- C5DF24, C5DEB9, C5DFJ6
- Pockets
- 10 · best druggability 0.55
Structure
x-ray diffraction · 9 distinct chains · 67% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | KLTH0D11660P | protein | 76 | 53% helix, 11% strand | C5DF24 |
| B | KLTH0C07942P | protein | 135 | 26% helix, 36% strand | C5DEB9 |
| C | KLTH0D15642P | protein | 404 | 85% helix, 2% strand | C5DFJ6 |
| D | KLTH0D11660P | protein | 82 | 50% helix, 10% strand | C5DF24 |
| E | KLTH0C07942P | protein | 128 | 26% helix, 38% strand | C5DEB9 |
| F | KLTH0D15642P | protein | 405 | 85% helix, 3% strand | C5DFJ6 |
| G | ATG13 17BR | protein | 8 | 0% helix, 0% strand | — |
| H | ATG13 17BR | protein | 6 | 0% helix, 0% strand | — |
| I, J | ATG13 17LR | protein | 9 | 0% helix, 11% strand | — |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 219 | 0.55 | 0.78 | 38 | empty |
| 2 | 213 | 0.54 | 0.78 | 28 | empty |
| 3 | 258 | 0.52 | 0.76 | 37 | empty |
| 4 | 231 | 0.51 | 0.76 | 34 | empty |
| 5 | 214 | 0.50 | 0.76 | 33 | empty |
Interfaces
11 interfaces between chains.
- C–F · 2554 Ų buried · 33 hydrogen bonds · protein-protein
- A–B · 2154 Ų buried · 35 hydrogen bonds · protein-protein
- D–E · 2025 Ų buried · 31 hydrogen bonds · protein-protein
- E–F · 1636 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 1571 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5JHF · Crystal structure of Atg13(17BR)-Atg13(17LR)-Atg17-Atg29-Atg31 complex · 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 C5DF24
- Every structure of UniProt C5DEB9
- Every structure of UniProt C5DFJ6
- Elsewhere: RCSB PDB 5JHF · PDBe 5JHF · UniProt C5DF24 · UniProt C5DEB9 · UniProt C5DFJ6
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