Experiment: 2JO6

NMR structure of the E.coli protein NirD, Northeast Structural Genomics target ET100

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D 1H-15N NOESY	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	95% H2O/5% D2O	300	7.0	ambient	293
2	2D 1H-15N HSQC	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	95% H2O/5% D2O	300	7.0	ambient	293
3	2D 1H-13C HSQC	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	95% H2O/5% D2O	300	7.0	ambient	293
4	3D HNCACB	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	95% H2O/5% D2O	300	7.0	ambient	293
5	3D 1H-13C NOESY	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	95% H2O/5% D2O	300	7.0	ambient	293
6	4D CC NOESY	1 mM [U-100% 13C] protein, 10 mM TRIS, 300 mM sodium chloride, 10 uM ZINC ION, 10 mM DTT, 0.01 % sodium azide	100% D2O	300	7.0	ambient	293

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600
2	Varian	INOVA	750

NMR Refinement
Method	Details	Software
simulated annealing	simulated annealing using NIH xplor, followed by cns water refinement.	AutoStructure

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	25
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	data analysis	AutoStructure	2.1.1	Huang, Swapana, Rajan, Ke, Xia, Shukla, Inouye and Montelione
2	structure solution	X-PLOR NIH	2.15.0	Schwieters, Kuszewski, Tjandra and Clore
3	refinement	CNS	1.1	Brunger, Adams, Clore, Gros, Nilges and Read
4	peak picking	Sparky	3.1	Goddard
5	processing	NMRPipe	linux9	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax