6I4N | pdb_00006i4n

Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	100% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600
2	2D DQF-COSY	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	100% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600
3	2D 1H-1H TOCSY	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	100% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600
4	2D 1H-13C HSQC	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	100% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600
5	31P -1H COSY	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	100% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600
6	2D NOESY	1.3 mM DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3')	90% H2O/10% D2O	100 mM	7.4	1 atm	298	Bruker AVANCE II 600

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE II	600

NMR Refinement
Method	Details	Software
simulated annealing		Amber
molecular dynamics		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with acceptable covalent geometry
Conformers Calculated Total Number	5000
Conformers Submitted Total Number	10
Representative Model	1 (most represented cluster)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
2	structure calculation	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	Sparky		Goddard
4	structure calculation	MARDIGRAS		Borgias AB