MolNFT v1 · #10726 · protein
Crystal structure of thermus thermophilus glutamyl-tRNA synthetase complexed with ATP and glu
1J09: “Crystal structure of thermus thermophilus glutamyl-tRNA synthetase complexed with ATP and glu”. X-ray diffraction, 3 ligands (GLU, ATP, MG), 2 pockets (best druggability 0.72). MolNFT v1 #10726 on GenesisL1: 3D structure, binding…
- PDB
- 1J09
- Type
- protein
- Length
- 468 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamyl-tRNA synthetase
- EC
- 6.1.1.17
- UniProt
- P27000
- Ligands
- GLU, ATP, MG
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamyl-tRNA synthetase (EC 6.1.1.17) | protein | 468 | 53% helix, 11% strand | P27000 |
Ligands and binding sites
- GLU · Glutamic acid · ligand · chains A
- ATP · Adenosine-5'-triphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 437 | 0.72 | 0.82 | 46 | MG, GLU, ATP |
| 2 | 51 | 0.36 | 0.80 | 15 | empty |
Compared structures
- 1J09 · Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with ATP and… · the same entry in another collection · chain A against A, TM-score 1.00
- P27000 · AlphaFold monomer V2.0 prediction for glutamate--tRNA ligase (P27000) · 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 P27000
- Elsewhere: RCSB PDB 1J09 · PDBe 1J09 · UniProt P27000
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