Research workbench
Crystal structure of glutaminyl-tRNA synthetase complexed with a tRNA- gln mutant and an active-site inhibitor
Analyse Crystal structure of glutaminyl-tRNA synthetase complexed with a tRNA- gln… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EUQ
- Type
- protein + RNA
- Length
- 601 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutaminyl tRNA; Glutaminyl-tRNA synthetase
- EC
- 6.1.1.18
- UniProt
- P00962
- Ligands
- QSI
- Pockets
- 8 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Glutaminyl tRNA | rna | 72 | — | — |
| A | Glutaminyl-tRNA synthetase (EC 6.1.1.18) | protein | 529 | 31% helix, 22% strand | P00962 |
Ligands and binding sites
- QSI · 5'-O-[N-(L-glutaminyl)-sulfamoyl]adenosine · ligand · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 916 | 0.80 | 0.83 | 86 | QSI |
| 2 | 620 | 0.66 | 0.77 | 30 | empty |
| 3 | 661 | 0.66 | 0.76 | 40 | empty |
| 4 | 173 | 0.64 | 0.85 | 29 | empty |
| 5 | 218 | 0.52 | 0.77 | 24 | empty |
Interfaces
1 interface between chains.
- B–A · 2720 Ų buried · 65 hydrogen bonds · protein-nucleic
Compared structures
- 1EUQ · Crystal structure of glutaminyl-tRNA synthetase complexed with a tRNA-gln mutant and an… · the same entry in another collection · chain B against B, TM-score 1.00
- P00962 · AlphaFold monomer V2.0 prediction for glutamine--tRNA ligase (P00962) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P00962
- Elsewhere: RCSB PDB 1EUQ · PDBe 1EUQ · UniProt P00962
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