3GE7

tRNA-guanine transglycosylase in complex with 6-amino-4-{2-[(cyclopentylmethyl)amino]ethyl}-2-(methylamino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one

Structural Biology Knowledgebase: 3GE7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Observed: 0.162

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3GE7

Classification: TRANSFERASE

Total Structure Weight: 43531.07

Macromolecule Entities
Molecule Chains Length Organism Details
Queuine tRNA-ribosyltransferase A 386 Zymomonas mobilis EC#: 2.4.2.29 IUBMB
Gene Name(s): tgt ZMO0363

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AFQ
Query on AFQ

A 6-amino-4-{2-[(cyclopentylmethyl)amino]ethyl}- 2-(methylamino)-1,7-dihydro-8H-imidazo[4,5- g]quinazolin-8-one
C18 H25 N7 O
OTRZFAIJJHPZSL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AFQ N/A in BindingDB
Ki: 2 nM  BindingMOAD
Ki: 2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Observed: 0.162
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.20 α = 90.00
b = 65.20 β = 96.10
c = 70.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-02-25
  • Released Date: 2009-12-15
  • Deposition author(s): Ritschel, T., Heine, A., Klebe, G.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4