Research workbench
Crystal structure of HEPG5 LIR/GABARAPL1 complex
Analyse Crystal structure of HEPG5 LIR/GABARAPL1 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JHX
- Type
- protein
- Length
- 247 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-aminobutyric acid receptor-associated protein-like 1; Ectopic P granules protein 5…
- UniProt
- Q9H0R8, Q9HCE0
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.27
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-aminobutyric acid receptor-associated protein-like 1 | protein | 117 | 32% helix, 22% strand | Q9H0R8 |
| B | Gamma-aminobutyric acid receptor-associated protein-like 1 | protein | 116 | 33% helix, 22% strand | Q9H0R8 |
| C | Ectopic P granules protein 5 homolog | protein | 6 | 0% helix, 33% strand | Q9HCE0 |
| D | Ectopic P granules protein 5 homolog | protein | 8 | 0% helix, 38% strand | Q9HCE0 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains A, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 60 | 0.27 | 0.73 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 784 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 631 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 560 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7JHX · Crystal structure of hEPG5 LIR/GABARAPL1 complex · the same entry in another collection · chain D against D, TM-score 1.00
- Q9H0R8 · AlphaFold monomer V2.0 prediction for gamma-aminobutyric acid receptor-associated… · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q9HCE0 · AlphaFold monomer V2.0 prediction for ectopic P granules protein 5 homolog (Q9HCE0) · a predicted model of the same protein · chain C against A, TM-score 0.83
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 Q9H0R8
- Every structure of UniProt Q9HCE0
- Elsewhere: RCSB PDB 7JHX · PDBe 7JHX · UniProt Q9H0R8 · UniProt Q9HCE0
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