MolNFT v1 · #18825 · protein
Crystal structure of an active fragment of human tyrosyl-tRNA synthetase with tyrosinol
1Q11: “Crystal structure of an active fragment of human tyrosyl-tRNA synthetase with tyrosinol”. X-ray diffraction, 3 ligands (TYE, K, PO4), 4 pockets (best druggability 0.69). MolNFT v1 #18825 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1Q11
- Type
- protein
- Length
- 329 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tyrosyl-tRNA synthetase
- EC
- 6.1.1.1
- UniProt
- P54577
- Ligands
- TYE, K, PO4
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 55% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tyrosyl-tRNA synthetase (EC 6.1.1.1) | protein | 329 | 55% helix, 12% strand | P54577 |
Ligands and binding sites
- TYE · 4-[(2S)-2-amino-3-hydroxypropyl]phenol · ligand · chains A
- K · Potassium ion · metal · chains A
- PO4 · Phosphate ion · ion · chains A
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 401 | 0.69 | 0.81 | 45 | K, TYE |
| 2 | 54 | 0.47 | 0.85 | 17 | empty |
| 3 | 63 | 0.42 | 0.81 | 14 | empty |
| 4 | 66 | 0.34 | 0.76 | 12 | empty |
Compared structures
- 1Q11 · Crystal structure of an active fragment of human tyrosyl-tRNA synthetase with tyrosinol · the same entry in another collection · chain A against A, TM-score 1.00
- P54577 · AlphaFold monomer V2.0 prediction for tyrosine--tRNA ligase, cytoplasmic (P54577) · 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 P54577
- Elsewhere: RCSB PDB 1Q11 · PDBe 1Q11 · UniProt P54577
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.