1S39

CRYSTAL STRUCTURE OF TGT IN COMPLEX WITH 2-aminoquinazolin-4(3H)-one

• PDB DOI: https://doi.org/10.2210/pdb1S39/pdb

• Classification: TRANSFERASE
• Organism(s): Zymomonas mobilis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-01-12 Released: 2004-11-16 
• Deposition Author(s): Brenk, R., Meyer, E.A., Reuter, K., Garcia, G.A., Stubbs, M.T., Klebe, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.242 
• R-Value Work: 0.209 
• R-Value Observed: 0.209 

Literature

Synthesis and In Vitro Evaluation of 2-Aminoquinazolin-4(3H)-one-Based Inhibitors for tRNA-Guanine Transglycosylase (TGT)

Meyer, E.A., Furler, M., Diederich, F., Brenk, R., Klebe, G.

(2004) Helv Chim Acta 87: 1333-1356

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 43.15 kDa 
• Atom Count: 3,056 
• Modelled Residue Count: 366 
• Deposited Residue Count: 386 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
tRNA guanine transglycosylase	A	386	Zymomonas mobilis	Mutation(s): 0  Gene Names: TGT EC: 2.4.2.29
UniProt
Find proteins for P28720 (Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)) Explore P28720  Go to UniProtKB:  P28720

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AQO	C [auth A]	2-AMINOQUINAZOLIN-4(3H)-ONE C8 H7 N3 O SDTFBAXSPXZDKC-UHFFFAOYSA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
AQO	Binding MOAD:  1S39	Ki: 20 (nM) from 1 assay(s)
	PDBBind:  1S39	Ki: 20 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.242 
• R-Value Work: 0.209 
• R-Value Observed: 0.209 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 89.71	α = 90
b = 64.72	β = 95.76
c = 70.66	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-11-16 
Deposition Author(s): Brenk, R., Meyer, E.A., Reuter, K., Garcia, G.A., Stubbs, M.T., Klebe, G.

Revision History  

• Version 1.0: 2004-11-16
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2020-08-19
  Changes: Advisory, Data collection, Database references, Derived calculations
• Version 1.4: 2023-08-23
  Changes: Advisory, Data collection, Database references, Refinement description