6G81 | pdb_00006g81

Solution structure of the Ni metallochaperone HypA from Helicobacter pylori

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	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
2	3D HNCO	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
6	3D HN(CA)CO	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
3	3D HNCACB	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
7	3D CBCA(CO)NH	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
8	3D HBHANH	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
4	3D HBHA(CO)NH	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
5	3D HCCH-TOCSY	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Bruker AVANCE 900
9	2D 1H-13C HSQC aromatic	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
10	2D (HB)CB(CGCD)HD	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
11	2D (HB)CB(CGCDCE)HE	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
12	3D HBCB(CGCD)HD	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
13	3D HBCB(CGCDCE)HE	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
14	3D 1H-13C NOESY aromatic	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 600
15	4D 13C(ali)-HMQC-NOESY-13C(aro)-HSQC	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
16	3D 1H-15N NOESY	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
17	4D 13C(ali)-HMQC-NOESY-13C(ali)-HMQC	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800
18	4D 13C-HMQC-NOESY-15N-HSQC	1 mM [U-13C; U-15N] HypA, 20 mM HEPES, 200 mM sodium chloride, 1 mM TCEP	90% H2O/10% D2O	0.2	7.2	1 atm	298	Agilent DDR2 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	900
2	Bruker	AVANCE	950
3	Agilent	DDR2	800
4	Agilent	DDR2	600

NMR Refinement
Method	Details	Software
molecular dynamics		YASARA

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2	processing	Signal Separation Algorithm (SSA)		Stanek, Kosinski, Kozminski
3	chemical shift assignment	CARA		Keller and Wuthrich
4	chemical shift assignment	Sparky		Goddard
5	data analysis	TALOS+		Cornilescu, Delaglio and Bax
6	structure calculation	YARIA		Bardiaux, Krieger, Spronk
8	structure calculation	ARIA		Linge, O'Donoghue and Nilges
7	refinement	YASARA		YASARA Biosciences