Research workbench
TRNA-guanine transglycosylase (tgt) in complex with 6-amino-4-[2-(4- METHOXYPHENYL)ETHYL]-1,7-dihydro-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-one
Analyse TRNA-guanine transglycosylase (tgt) in complex with 6-amino-4-[2-(4… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Y5X
- Type
- protein
- Length
- 719 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Queuine tRNA-ribosyltransferase
- EC
- 2.4.2.29
- UniProt
- P28720
- Ligands
- E89, ZN
- Pockets
- 5 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Queuine tRNA-ribosyltransferase (EC 2.4.2.29) | protein | 367 | 46% helix, 19% strand | P28720 |
| D | Queuine tRNA-ribosyltransferase (EC 2.4.2.29) | protein | 352 | 46% helix, 20% strand | P28720 |
Ligands and binding sites
- E89 · 6-amino-4-[2-(4-methoxyphenyl)ethyl]-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one · ligand · 2 copies · chains A, D
- ZN · Zinc ion · metal · 2 copies · chains A, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 260 | 0.64 | 0.81 | 41 | E89 |
| 2 | 289 | 0.61 | 0.79 | 37 | E89 |
| 3 | 53 | 0.44 | 0.83 | 14 | empty |
| 4 | 59 | 0.33 | 0.78 | 15 | empty |
| 5 | 53 | 0.31 | 0.77 | 10 | empty |
Compared structures
- 1Y5X · tRNA-guanine Transglycosylase (TGT) in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
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 P28720
- Elsewhere: RCSB PDB 1Y5X · PDBe 1Y5X · UniProt P28720
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