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Clustered abasic lesions in dna: nmr solution structure of clustered bistranded +1 abasic lesion
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D NOESY
2mM DUPLEX, 25 mM PHOSPHATE BUFFER, 50 mM NaCl, 0.5 mM EDTA.
25 mM PHOSPHATE BUFFER, PH 6.8; 50 mM NaCl; 0.5 mM EDTA.
NOT DETERMINED
6.8
AMBIENT
298
2
2D TOCSY
2mM DUPLEX, 25 mM PHOSPHATE BUFFER, 50 mM NaCl, 0.5 mM EDTA.
25 mM PHOSPHATE BUFFER, PH 6.8; 50 mM NaCl; 0.5 mM EDTA.
NOT DETERMINED
6.8
AMBIENT
298
3
DQF-COSY
2mM DUPLEX, 25 mM PHOSPHATE BUFFER, 50 mM NaCl, 0.5 mM EDTA.
25 mM PHOSPHATE BUFFER, PH 6.8; 50 mM NaCl; 0.5 mM EDTA.
NOT DETERMINED
6.8
AMBIENT
298
4
COSY, COSY45
2mM DUPLEX, 25 mM PHOSPHATE BUFFER, 50 mM NaCl, 0.5 mM EDTA.
25 mM PHOSPHATE BUFFER, PH 6.8; 50 mM NaCl; 0.5 mM EDTA.
NOT DETERMINED
6.8
AMBIENT
298
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Varian
INOVA
500
2
Varian
INOVA
600
NMR Refinement
Method
Details
Software
RESTRAINED MOLECULAR DYNAMICS
1) HEATING STAGE: FROM 150 TO 500 K IN 70PS. INTRODUCTION OF EXPERIMENTAL RESTRAINTS AT THE END OF THIS STAGE. 2) HIGH TEMPERATURE STAGE: 50 PS DYNAMICS AT 500K 3) COOLING STAGE: FROM 500 TO 300K IN 40PS. 4) EQUILIBRATION STAGE: 120PS DYNAMICS AT 300K
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
structures with the least restraint violations
Conformers Calculated Total Number
20
Conformers Submitted Total Number
5
Representative Model
1 (closest to the average)
Additional NMR Experimental Information
Details
This structure was determined using standard 2D homonuclear techniques.