Research workbench
Crystal structure of apo tias (TRNAILE2 agmatidine synthetase)
Analyse Crystal structure of apo tias (TRNAILE2 agmatidine synthetase) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5XOB
- Type
- protein
- Length
- 417 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TRNA(ILE2) 2-agmatinylcytidine synthetase tias
- EC
- 6.3.4.22
- UniProt
- O28025
- Ligands
- ZN, MG
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 26% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| Z | TRNA(ILE2) 2-agmatinylcytidine synthetase tias (EC 6.3.4.22) | protein | 417 | 26% helix, 32% strand | O28025 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 667 | 0.72 | 0.79 | 66 | MG |
| 2 | 119 | 0.68 | 0.90 | 27 | empty |
| 3 | 65 | 0.36 | 0.78 | 13 | empty |
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 5XOB · Crystal structure of apo TiaS (tRNAIle2 agmatidine synthetase) · the same entry in another collection · chain Z against Z, TM-score 1.00
- O28025 · AlphaFold monomer V2.0 prediction for TRNA(ILE2) 2-agmatinylcytidine synthetase tias… · a predicted model of the same protein · chain Z against A, TM-score 0.97
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 O28025
- Elsewhere: RCSB PDB 5XOB · PDBe 5XOB · UniProt O28025
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.