MolNFT v1 · #171266 · protein

TRNA-guanine transglycosylase (tgt) labeled with 5-fluorotryptophan in co-crystallized complex with 6-amino-2-(methylamino)-4-(2-((2R,3R,4R, 5R)-3,4,5-trimethoxytetrahydrofuran-2-YL)ETHYL)-1,7-dihydro-8H- IMIDAZO[4,5-G]QUINAZOLIN-8-one

6YYZ · Queuine tRNA-ribosyltransferase: “TRNA-guanine transglycosylase (tgt) labeled with 5-fluorotryptophan in co-crystallized complex with…”. X-ray diffraction, 2 ligands (725, ZN), 2 pockets (best druggability 0.63). MolNFT v1 #171266…

PDB: 6YYZ
Type: protein
Length: 360 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: 725, ZN
Pockets: 2 · best druggability 0.63

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Queuine tRNA-ribosyltransferase (EC 2.4.2.29)	protein	360	46% helix, 18% strand	P28720

Ligands and binding sites

725 · 6-amino-2-(methylamino)-4-(2-((2R,3R,4R,5R)-3,4,5-trimethoxytetrahydrofuran-2-yl)ethyl)-1H-imidazo[4,5-g]quinazolin-8(7H)-one · ligand · chains A
ZN · Zinc 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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	267	0.63	0.81	40	725
2	62	0.31	0.76	18	empty

Modifications

Observed in the structure: 4 modified (nonstandard).

Compared structures

6YYZ · 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 6YYZ · PDBe 6YYZ · UniProt P28720

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