7YVW | pdb_00007yvw

NMR determination of the 2:1 binding motif structure involving cytosine flipping out for the recognition of the CGG/CGG triad DNA

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY (200 ms)	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker DRX 800
2	2D 1H-13C HSQC	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker AVANCE 500
3	2D 1H-31P HSQC	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker DRX 800
4	2D DQF-COSY	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker DRX 800
5	2D TOCSY	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker DRX 800
6	2D NOESY (30 ms)	2.5 mM NCD-GG1, 20 mM sodium phosphate, 100 mM sodium chloride	90% H2O/10% D2O	120 mM	6.8	1 atm	283	Bruker DRX 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DRX	800
2	Bruker	AVANCE	500

NMR Refinement
Method	Details	Software
simulated annealing		CNS

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	30
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	XwinNMR		Bruker Biospin
2	chemical shift assignment	NMRFAM-SPARKY		Lee W, Tonelli M, Markley JL
3	structure calculation	CNS		Brunger, Adams, Clore, Gros, Nilges and Read
4	peak picking	NMRFAM-SPARKY		Lee W, Tonelli M, Markley JL
5	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax