1J5N | pdb_00001j5n

Solution Structure of the Non-Sequence-Specific HMGB protein NHP6A in complex with SRY DNA

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D_13C-filtered_NOESY_Tmix=50	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
2	2D_13C-filtered_NOESY_Tmix=100	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
3	2D_13C-filtered_NOESY_Tmix=150	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
4	2D_13C-filtered_NOESY_Tmix=200	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
5	2D_13C-filtered_NOESY_Tmix=250	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
6	2D_13C-filtered_NOESY_Tmix=300	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
7	2D_13C-filtered_NOESY_Tmix=50	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
8	2D_13C-filtered_NOESY_Tmix=100	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
9	2D_13C-filtered_NOESY_Tmix=150	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
10	2D_13C-filtered_NOESY_Tmix=200	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
11	2D_13C-filtered_NOESY_Tmix=250	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
12	2D_13C-filtered_NOESY_Tmix=300	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
13	3D_15N-separated_NOESY	Uniform labeling with 15N of protein, DNA unlabeled, 2mM 90% H2O, 10% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
14	3D_13C-separated_NOESY	Uniform labeling with 15N,13C of protein, DNA unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
15	3D_13C_double-half-filtered_13C-separated_NOESY	Uniform labeling with 15N,13C of protein, DNA unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
16	3D_13C_double-half-filtered_13C-separated_NOESY	Uniform labeling with 15N,13C of DNA (both strands), protein unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
17	3D_13C_double-half-filtered_13C-separated_NOESY	Uniform labeling with 15N,13C of G-rich DNA strand and protein, C-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
18	3D_13C_double-half-filtered_13C-separated_NOESY	Uniform labeling with 15N,13C of C-rich DNA strand and protein, G-rich DNA strand unlabeled, 2mM 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	310
19	2D_11_echo_NOESY	protein and DNA unlabeled, 2mM sample 90% H2O, 10% D2O or 100% D2O		2 mM NaPO4, 10 mM NaCl	5.8	ambient	283

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DRX	600

NMR Refinement
Method	Details	Software
simulated annealing	The structures are based on a total of 3035 restraints. 102 are from alpha-helical hydrogen bond restraints within the protein (2/h-bond). 76 are hydrogen bond restraints for Watson-Crick base pairs in the DNA. The rest are NOE-derived. 2197 of the NOE restraints are protein-protein restraints, 578 are DNA-DNA restraints, and 82 are protein-DNA restraints.	XwinNMR

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

Additional NMR Experimental Information
Details	This structure calculated using standard 3D heteronuclear filtering and editing techniques with both labeled protein and labeled DNA.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	XwinNMR	2.6	Bruker
2	processing	Felix	2000	MSI
3	refinement	X-PLOR	3.1	Brunger