Find PDB structures and Computed Structure Models (CSM) by combining queries from tools in this suite: Attribute Search, Sequence Similarity, Sequence Motif, 3D Similarity, and 3D Motif with 'AND' logic.
NMR solution structure of the N-terminal domain of DNA-binding protein SATB1 from Homo sapiens: Northeast Structural Genomics Target HR4435B(179-250)
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D 1H-15N HSQC
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
2
2D 1H-13C HSQC
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
3
3D CBCA(CO)NH
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
4
3D HNCACB
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
5
3D HBHA(CO)NH
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
6
3D HNCO
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
7
3D HCCH-TOCSY
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
8
3D 1H-15N NOESY
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
9
3D 1H-13C NOESY
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
10
2D 1H-15N HSQC
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
11
2D 1H-13C HSQC
1.08 mM [U-100% 13C; U-100% 15N] HR4435B
90% H2O/10% D2O
5mM CaCl2, 100mM NaCl
6.5
1 atm
298
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
AVANCE
600
2
Bruker
AVANCE
800
NMR Refinement
Method
Details
Software
simulated annealing
The structure was determined using triple resonance NMR spectroscopy. Automated backbone assignments were made using Autoassign. Sidechain assignments were completed manually. Automated NOESY assignments were made using AutoStructure and structure solution was obtained using AutoStructure and CYANA-2.1. 150 structures were calculated and 20 best structures were refined in a shell of water using CNS. Initial dihedral angles were obtained using TALOS. The structure calculations were done including the N-terminal 6xHis tag. Resonance assignments were validated using AVS validation software. Final quality scores were determined using PSVS software. Ordered residues are defined as:11-13,18-54,62-77 . RMSD(ordered residuesall backbone aatoms 0.9A; All heavy atoms 1.4A; Ramachandran Statistics for all ordered residues: Most favoured 94.6%, additionally allowed region: 5.4%; Procheck scores for all ordered residues (Raw/Z) phi-psi 0.09/0.67; All dihedral angles 0.04/0.24; MolProbity clash score (Raw/Z) 13.00/-0.71. RPF scores for the goodness of fir of the structure to the NMR data: recall:0.933; Precision 0.918; F-measure 0.926 and final DP score: 0.768
AutoAssign
NMR Ensemble Information
Conformer Selection Criteria
structures with the lowest energy
Conformers Calculated Total Number
150
Conformers Submitted Total Number
20
Representative Model
1 (lowest energy)
Additional NMR Experimental Information
Details
Data acquisition on B600 was performed using 35 uL of 1.08mM sample and a 1.7mm microcryoprobe.