Research workbench
Crystal structure of human RTN3 lir fused to human gabarap
Analyse Crystal structure of human RTN3 lir fused to human gabarap in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7BRU
- Type
- protein
- Length
- 411 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reticulon-3,GAMMA-aminobutyric acid receptor-associated protein
- UniProt
- O95197, O95166
- Ligands
- PO4
- Pockets
- 5 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Reticulon-3,GAMMA-aminobutyric acid receptor-associated protein | protein | 138 | 33% helix, 20% strand | O95197, O95166 |
| B | Reticulon-3,GAMMA-aminobutyric acid receptor-associated protein | protein | 135 | 35% helix, 21% strand | O95197, O95166 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 6 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 765 | 0.82 | 0.85 | 70 | empty |
| 2 | 320 | 0.61 | 0.78 | 40 | PO4 |
| 3 | 183 | 0.53 | 0.79 | 29 | PO4 |
| 4 | 141 | 0.52 | 0.80 | 27 | PO4 |
| 5 | 57 | 0.34 | 0.78 | 13 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1236 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 1157 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 965 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 7BRU · Crystal structure of human RTN3 LIR fused to human GABARAP · the same entry in another collection · chain A against A, 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 B against A, TM-score 0.85
- O95197 · AlphaFold monomer V2.0 prediction for reticulon-3 (O95197) · a predicted model of the same protein · chain A against A, TM-score 0.30
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 O95197
- Every structure of UniProt O95166
- Elsewhere: RCSB PDB 7BRU · PDBe 7BRU · UniProt O95197 · UniProt O95166
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