› 5v3c

X-ray diffraction
1.42Å resolution

Crystal structure of TGT in complex with 4-(aminomethane)cyclohexane-1-carboxylic acid

Released:
DOI: 10.2210/pdb5v3c/pdb
PDB entry 5v3c coloured by chain, front view.
PDB entry 5v3c coloured by chain, side view.
PDB entry 5v3c coloured by chain, top view.
Source organism: Zymomonas mobilis
Primary publication:
Fragments as Novel Starting Points for tRNA-Guanine Transglycosylase Inhibitors Found by Alternative Screening Strategies.
Hassaan E, Eriksson PO, Geschwindner S, Heine A, Klebe G
ChemMedChem 15 324-337 (2020)
PMID: 31808981

Function and Biology Details

Reaction catalysed: 
Guanine(34) in tRNA + 7-aminomethyl-7-carbaguanine = 7-aminomethyl-7-carbaguanine(34) in tRNA + guanine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151274 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Queuine tRNA-ribosyltransferase Chain: A
Molecule details ›
Chain: A
Length: 375 amino acids
Theoretical weight: 41.76 KDa
Source organism: Zymomonas mobilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P28720 (Residues: 10-384; Coverage: 97%)
Gene names: ZMO0363, tgt
Sequence domains: Queuine tRNA-ribosyltransferase
Structure domains: Queuine tRNA-ribosyltransferase-like

Ligands and Environments

5 bound ligands:
Ligand ZN 1 x ZN
Ligand AMH 1 x AMH
Ligand PEG 2 x PEG
Ligand DMS 2 x DMS
Ligand PGE 1 x PGE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Spacegroup: C2
Unit cell:
a: 88.746Å b: 63.739Å c: 70.43Å
α: 90° β: 92.59° γ: 90°
R-values:
R R work R free
0.135 0.134 0.155
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 citation in other articles

Fragment-Based Stabilizers of Protein-Protein Interactions through Imine-Based Tethering.
Wolter et al. (2020)
3 more

1 mention without citation

Fragments as Novel Starting Points for tRNA-Guanine Transglycosylase Inhibitors Found by Alternative Screening Strategies.
Hassaan et al. (2020)