Research workbench
Crystal structure of STX17 lir region in complex with gabarap
Analyse Crystal structure of STX17 lir region in complex with gabarap in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7BV4
- Type
- protein
- Length
- 518 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-aminobutyric acid receptor-associated protein; Syntaxin-17
- UniProt
- O95166, P56962
- Pockets
- 3 · best druggability 0.81
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Gamma-aminobutyric acid receptor-associated protein | protein | 112 | 32% helix, 25% strand | O95166 |
| C, D | Syntaxin-17 | protein | 15 | 47% helix, 7% strand | P56962 |
| E, G | Gamma-aminobutyric acid receptor-associated protein | protein | 117 | 33% helix, 22% strand | O95166 |
| F, H | Syntaxin-17 | protein | 15 | 47% helix, 7% strand | P56962 |
Ligands and binding sites
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains E, G
- GOL · Glycerol · additive · chains A, G
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1183 | 0.81 | 0.82 | 78 | empty |
| 2 | 88 | 0.40 | 0.78 | 20 | empty |
| 3 | 58 | 0.33 | 0.77 | 11 | empty |
Interfaces
16 interfaces between chains.
- B–D · 829 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 811 Ų buried · 13 hydrogen bonds · protein-protein
- G–H · 753 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 728 Ų buried · 9 hydrogen bonds · protein-protein
- B–E · 487 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 7BV4 · Crystal structure of STX17 LIR region in complex with GABARAP · the same entry in another collection · chain H against H, TM-score 1.00
- O95166 · AlphaFold monomer V2.0 prediction for gamma-aminobutyric acid receptor-associated protein… · a predicted model of the same protein · chain E against A, TM-score 0.98
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 O95166
- Every structure of UniProt P56962
- Elsewhere: RCSB PDB 7BV4 · PDBe 7BV4 · UniProt O95166 · UniProt P56962
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.