MolNFT v1 · #170723 · protein
TRNA-guanine transglycosylase (tgt) labeled with 5-fluorotryptophan in co-crystallized complex with 2-(methylamino)-1,7-dihydro-8H- IMIDAZO[4,5-G]QUINAZOLIN-8-one
6YH2 · Queuine tRNA-ribosyltransferase: “TRNA-guanine transglycosylase (tgt) labeled with 5-fluorotryptophan in co-crystallized complex with…”. X-ray diffraction, 3 ligands (ITE, ZN, CL), 1 pocket (best druggability 0.65). MolNFT v1…
- PDB
- 6YH2
- Type
- protein
- Length
- 369 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Queuine tRNA-ribosyltransferase
- EC
- 2.4.2.29
- UniProt
- P28720
- Ligands
- ITE, ZN, CL
- Pockets
- 1 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Queuine tRNA-ribosyltransferase (EC 2.4.2.29) | protein | 369 | 46% helix, 19% strand | P28720 |
Ligands and binding sites
- ITE · 2-(methylamino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one · ligand · chains A
- ZN · Zinc ion · metal · chains A
- CL · Chloride 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
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 263 | 0.65 | 0.82 | 41 | ITE |
Modifications
Observed in the structure: 4 modified (nonstandard).
Compared structures
- 6YH2 · tRNA-guanine Transglycosylase (TGT) labeled with 5-fluorotryptophan in co-crystallized… · 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 6YH2 · PDBe 6YH2 · UniProt P28720
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