2HPX | pdb_00002hpx

13mer Duplex DNA containing a 4'-oxidized abasic site, averaged structure

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 10 mM sodium phosphate, 0.2 mM EDTA	100% D2O	10 mM sodium phosphate mM	6.5	1 atm	298
2	2D TOCSY	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 10 mM sodium phosphate, 0.2 mM EDTA	100% D2O	10 mM sodium phosphate mM	6.5	1 atm	298
3	E-COSY	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 10 mM sodium phosphate, 0.2 mM EDTA	100% D2O	10 mM sodium phosphate mM	6.5	1 atm	298
4	PH-COSY	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 10 mM sodium phosphate, 0.2 mM EDTA	100% D2O	10 mM sodium phosphate mM	6.5	1 atm	298
5	HP-HSQC	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 10 mM sodium phosphate, 0.2 mM EDTA	100% D2O	10 mM sodium phosphate mM	6.5	1 atm	298
6	2D NOESY	2.0 mM duplex DNA containing a 4'-oxidized abasic site, 0.2 mM EDTA	90%D2O/10% H2O	10 mM sodium phosphate mM	6.5	1 atm	277

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Home-built	Custom-built	750
2	Home-built	Custom-built	591

NMR Refinement
Method	Details	Software
simulated annealing matrix relaxation	the structures are based on 410 NOE-derived distance constraints, 43 dihedral angle restraints,8 distance restraints from hydrogen bonds.	Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	30
Conformers Submitted Total Number	1
Representative Model	1 (minimized average structure)

Additional NMR Experimental Information
Details	The structure model was determined using standard 2D homonuclear and heteronuclear techniques

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	Amber	8.0	Case, D.A. et al.
2	data analysis	Felix	2000
3	data analysis	MARDIGRAS