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The crystal structure of the GST-like domains complex of AIMP3-eprs mutant C92SC105SC123S
Analyse The crystal structure of the GST-like domains complex of AIMP3-eprs mutant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5BMU
- Type
- protein
- Length
- 1,330 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation elongation factor 1 epsilon-1; Glutamate--tRNA ligase
- EC
- 6.1.1.17
- UniProt
- O43324, P07814
- Pockets
- 16 · best druggability 0.75
Structure
x-ray diffraction · 5 distinct chains · 52% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation elongation factor 1 epsilon-1 | protein | 165 | 53% helix, 6% strand | O43324 |
| B, F | Glutamate--tRNA ligase (EC 6.1.1.17) | protein | 166 | 52% helix, 10% strand | P07814 |
| C, E, G | Eukaryotic translation elongation factor 1 epsilon-1 | protein | 168 | 52% helix, 7% strand | O43324 |
| D | Glutamate--tRNA ligase (EC 6.1.1.17) | protein | 164 | 51% helix, 12% strand | P07814 |
| H | Glutamate--tRNA ligase (EC 6.1.1.17) | protein | 165 | 53% helix, 7% strand | P07814 |
Pockets
16 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 889 | 0.75 | 0.79 | 85 | empty |
| 2 | 728 | 0.75 | 0.80 | 72 | empty |
| 3 | 188 | 0.55 | 0.80 | 27 | empty |
| 4 | 317 | 0.52 | 0.74 | 46 | empty |
| 5 | 101 | 0.44 | 0.79 | 21 | empty |
Interfaces
9 interfaces between chains.
- A–C · 1037 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 823 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 817 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 791 Ų buried · 2 hydrogen bonds · protein-protein
- C–D · 790 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 5BMU · The crystal structure of the GST-like domains complex of AIMP3-EPRS mutant C92SC105SC123S · the same entry in another collection · chain H against H, TM-score 1.00
- P07814 · AlphaFold monomer V2.0 prediction for bifunctional GLUTAMATE/PROLINE --tRNA ligase… · a predicted model of the same protein · chain D against A, TM-score 0.98
- O43324 · AlphaFold monomer V2.0 prediction for eukaryotic translation elongation factor 1… · a predicted model of the same protein · chain A against A, TM-score 0.96
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 O43324
- Every structure of UniProt P07814
- Elsewhere: RCSB PDB 5BMU · PDBe 5BMU · UniProt O43324 · UniProt P07814
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