5UZI | pdb_00005uzi

Insights into Watson-Crick/Hoogsteen Breathing Dynamics and Damage Repair from the Solution Structure and Dynamic Ensemble of DNA Duplexes containing m1A - A6-DNAm1A16 structure

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N SOFAST-HMQC	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800
2	2D 1H-13C SOFAST-HMQC	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800
3	2D 1H-13C HSQC aliphatic	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800
4	2D 1H-1H NOESY	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800
5	2D 1H-1H TOCSY	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Bruker AVANCE II 600
6	2D DQF-COSY	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Bruker AVANCE II 600
7	2D 1H-31P HSQC	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Bruker AVANCE II 600
8	2D 1H-13C TROSY	3.0 mM DNA (5'-D(*CP*GP*AP*TP*TP*TP*TP*TP*TP*GP*GP*C)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800
9	2D 1H-13C TROSY	3.0 mM DNA (5'-D(*GP*CP*CP*(M1A)P*AP*AP*AP*AP*AP*TP*CP*G)-3')	90% H2O/10% D2O	100 mM	6.8	1 atm	298	Varian INOVA 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	800
2	Bruker	AVANCE II	600

NMR Refinement
Method	Details	Software
simulated annealing		X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	256
Conformers Submitted Total Number	10
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	Sparky	NMRFAM	Goddard
2	collection	VNMR		Varian
3	collection	TopSpin		Bruker Biospin
4	data analysis	Sparky	NMRFAM	Goddard
5	peak picking	Sparky	NMRFAM	Goddard
6	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore