Research workbench
Metazoan pre-targeting get complex with sgta (cbuggs)
Analyse Metazoan pre-targeting get complex with sgta (cbuggs) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RUC
- Type
- protein
- Length
- 1,344 residues
- Chains
- 7
- 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
- 18 · best druggability 0.88
Structure
electron microscopy · 6 distinct chains · 58% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATPase GET3 (EC 3.6.-.-) | protein | 306 | 48% helix, 14% strand | Q6IQE5 |
| B | ATPase GET3 (EC 3.6.-.-) | protein | 305 | 49% helix, 14% strand | Q6IQE5 |
| C, F | Golgi to er traffic protein 4 homolog | protein | 271 | 75% helix, 0% strand | Q7L5D6 |
| D | Large proline-rich protein BAG6 | protein | 43 | 53% helix, 0% strand | P46379 |
| G | Large proline-rich protein BAG6 | protein | 100 | 55% helix, 0% strand | P46379 |
| H | Ubiquitin-like protein 4A | protein | 48 | 81% 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
18 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 576 | 0.88 | 0.94 | 75 | ATP, MG |
| 2 | 877 | 0.77 | 0.80 | 84 | empty |
| 3 | 918 | 0.76 | 0.79 | 79 | empty |
| 4 | 169 | 0.61 | 0.83 | 21 | empty |
| 5 | 211 | 0.59 | 0.81 | 30 | empty |
Interfaces
11 interfaces between chains.
- A–B · 2397 Ų buried · 30 hydrogen bonds · protein-protein
- G–H · 1470 Ų buried · 14 hydrogen bonds · protein-protein
- F–G · 1245 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 1195 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 1049 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 7RUC · Metazoan pre-targeting GET complex with SGTA (cBUGGS) · the same entry in another collection · chain H against H, 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 0.90
- P11441 · AlphaFold monomer V2.0 prediction for ubiquitin-like protein 4A (P11441) · a predicted model of the same protein · chain H 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 Q6IQE5
- Every structure of UniProt Q7L5D6
- Every structure of UniProt P46379
- Every structure of UniProt P11441
- Elsewhere: RCSB PDB 7RUC · PDBe 7RUC · UniProt Q6IQE5 · UniProt Q7L5D6 · UniProt P46379 · UniProt P11441
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.