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Structural Basis for Bifunctional Zn(II) Macrocyclic Complex Recognition of Thymine Bulges in DNA
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D DQF-COSY
0.6 mM DNA (5'-D(*GP*CP*CP*GP*CP*AP*GP*TP*GP*C)-3')
100% D2O
0.1
7.5
ambient
293
2
2D 1H-1H TOCSY
0.6 mM DNA (5'-D(*GP*CP*CP*GP*CP*AP*GP*TP*GP*C)-3')
100% D2O
0.1
7.5
ambient
293
3
2D 1H-1H NOESY
0.6 mM DNA (5'-D(*GP*CP*CP*GP*CP*AP*GP*TP*GP*C)-3')
100% D2O
0.1
7.5
ambient
293
4
2D 1H-1H NOESY
2.0 mM DNA (5'-D(*GP*CP*CP*GP*CP*AP*GP*TP*GP*C)-3')
90% H2O/10% D2O
0.1
7.5
ambient
278
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Varian
INOVA
500
NMR Refinement
Method
Details
Software
DGSA-distance geometry simulated annealing, Docking with energy minimization
One of the structures from PDB 2lo8 was selected and used for docking of of the Zn(cy4q), One conformer was selected from the the cyana calculation above and the Zn(cy4q) docked using energy minimization and distance restraints obtained from NMR data.