1N2V

Crystal Structure of TGT in complex with 2-Butyl-5,6-dihydro-1H-imidazo[4,5-d]pyridazine-4,7-dione

Structural Biology Knowledgebase: 1N2V SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.188

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1N2V

Classification: transferase

Total Structure Weight: 43199.70

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 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BDI
Query on BDI

A 2-BUTYL-5,6-DIHYDRO-1H-IMIDAZO[4,5-D]PYRIDAZINE- 4,7-DIONE
C9 H12 N4 O2
DQHJYYALMHIEAH-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 %)
BDI Ki: 83000 nM (99) BindingDB

Ki: 83000 nM  BindingMOAD
Ki: 83000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.188
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.06 α = 90.00
b = 64.38 β = 96.50
c = 70.77 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-10-24
  • Released Date: 2003-04-08
  • Deposition author(s): Brenk, R., Naerum, L., Graedler, U., Gerber, H.-D., Garcia, G.A., Reuter, K., Stubbs, M.T., Klebe, G.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4