2KDZ | pdb_00002kdz

Structure of the R2R3 DNA binding domain of MYB1 protein from protozoan parasite trichomonas vaginalis in complex with MRE-1/MRE-2R DNA

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
2	3D HNCO	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
3	3D CBCA(CO)NH	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
4	3D HNCACB	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
5	3D 1H-15N NOESY	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
6	3D 1H-13C NOESY	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
7	3D HN(CA)CO	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
8	3D HCCH-TOCSY	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
9	3D C(CO)NH	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
10	3D HBHA(CO)NH	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298
11	2D 1H-15N HxNOE	50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 10 mM DTT	90% H2O/10% D2O	0.32	6.0	ambient	298

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

NMR Refinement
Method	Details	Software
simulated annealing, WATER REFINEMENT		NMRViewJ

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	NMRViewJ	8.0	Johnson, One Moon Scientific
2	data analysis	NMRViewJ	8.0	Johnson, One Moon Scientific
3	peak picking	NMRViewJ	8.0	Johnson, One Moon Scientific
4	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
5	chemical shift assignment	Sparky		Goddard
6	data analysis	Sparky		Goddard
7	peak picking	Sparky		Goddard
8	data analysis	TALOS		Cornilescu, Delaglio and Bax
9	structure solution	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
10	docking model	HADDOCK	2.0	(HADDOCK)-Alexandre Bonvin
11	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore