Research workbench
Metazoan pre-targeting get complex (cbugg-in)
Analyse Metazoan pre-targeting get complex (cbugg-in) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RU9
- Type
- protein
- Length
- 1,448 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATPase GET3; Golgi to er traffic protein 4 homolog; Large proline-rich protein BAG6…
- EC
- 3.6.-.-
- UniProt
- Q6IQE5, Q7L5D6, P46379, P11441
- Ligands
- ATP, MG, ZN
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 4 distinct chains · 63% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ATPase GET3 (EC 3.6.-.-) | protein | 306 | 48% helix, 14% strand | Q6IQE5 |
| C, F | Golgi to er traffic protein 4 homolog | protein | 271 | 75% helix, 0% strand | Q7L5D6 |
| D, G | Large proline-rich protein BAG6 | protein | 99 | 65% helix, 0% strand | P46379 |
| E, H | Ubiquitin-like protein 4A | protein | 48 | 83% helix, 0% strand | P11441 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- ZN · Zinc ion · metal · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 541 | 0.87 | 0.92 | 84 | ATP, MG |
| 2 | 1173 | 0.76 | 0.78 | 95 | empty |
| 3 | 1194 | 0.75 | 0.78 | 89 | empty |
| 4 | 327 | 0.58 | 0.77 | 44 | empty |
| 5 | 244 | 0.56 | 0.78 | 28 | empty |
Interfaces
13 interfaces between chains.
- A–B · 2253 Ų buried · 29 hydrogen bonds · protein-protein
- G–H · 1341 Ų buried · 13 hydrogen bonds · protein-protein
- D–E · 1338 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1221 Ų buried · 16 hydrogen bonds · protein-protein
- F–G · 1209 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 7RU9 · Metazoan pre-targeting GET complex (cBUGG-in) · the same entry in another collection · chain F against F, TM-score 1.00
- Q7L5D6 · AlphaFold monomer V2.0 prediction for golgi to er traffic protein 4 homolog (Q7L5D6) · a predicted model of the same protein · chain F against A, TM-score 0.94
- Q6IQE5 · AlphaFold monomer V2.0 prediction for ATPase GET3 (Q6IQE5) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 Q6IQE5
- Every structure of UniProt Q7L5D6
- Every structure of UniProt P46379
- Every structure of UniProt P11441
- Elsewhere: RCSB PDB 7RU9 · PDBe 7RU9 · UniProt Q6IQE5 · UniProt Q7L5D6 · UniProt P46379 · UniProt P11441
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