Research workbench
Crystal structure of ankg LIR/GABARAPL1 complex
Analyse Crystal structure of ankg 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
- 5YIP
- Type
- protein
- Length
- 146 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-aminobutyric acid receptor-associated protein-like 1; Ankyrin-3
- UniProt
- Q8R3R8, O70511
- Pockets
- 1 · best druggability 0.33
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-aminobutyric acid receptor-associated protein-like 1 | protein | 123 | 32% helix, 21% strand | Q8R3R8 |
| B | Ankyrin-3 | protein | 23 | 43% helix, 4% strand | O70511 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
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 | 79 | 0.33 | 0.74 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 894 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5YIP · Crystal Structure of AnkG LIR/GABARAPL1 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q8R3R8 · AlphaFold monomer V2.0 prediction for gamma-aminobutyric acid receptor-associated… · a predicted model of the same protein · chain A against A, TM-score 0.92
- O70511 · AlphaFold monomer V2.0 prediction for ankyrin-3 (O70511) · a predicted model of the same protein · chain B against A, TM-score 0.52
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 Q8R3R8
- Every structure of UniProt O70511
- Elsewhere: RCSB PDB 5YIP · PDBe 5YIP · UniProt Q8R3R8 · UniProt O70511
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