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 structure of the HLTF HIRAN domain in its DNA-bound conformation
SOLUTION NMR
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] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
2
2D 1H-13C HSQC
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
3
3D 1H-13C NOESY
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
4
3D 1H-15N NOESY
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
5
3D HCCH-TOCSY
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
6
3D HNCO
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
7
3D HNCA
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
8
3D HN(CO)CA
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
9
2D 1H-13C HSQC aromatic
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
10
3D 1H-13C NOESY CN_filtered
1 mM [U-13C; U-15N] protein, 20 mM sodium phosphate, 100 mM sodium chloride
90% H2O/10% D2O
0.1
6.8
ambient
298
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Agilent
PremiumCOMPACT
800
NMR Refinement
Method
Details
Software
THE STRUCTURE OF THE 15N/13C-LABELED HIRAN DOMAIN WAS DETERMINED IN THE PRESENCE OF UNLABELED SSDNA (DTTTTTTTTTT). THE DNA STRUCTURE WAS NOT DETERMINED. DNA-BINDING SITE WAS MAPPED USING NMR CHEMICAL SHIFT CHANGES. THE VALUES OF DNA-BINDING INDUCED CHEMICAL SHIFT CHANGES ARE AVAILABLE AS PART OF BMRB DEPOSITION 25492.
Sparky
NMR Ensemble Information
Conformer Selection Criteria
structures with the lowest energy
Conformers Calculated Total Number
200
Conformers Submitted Total Number
20
Representative Model
1 (lowest energy)
Computation: NMR Software
#
Classification
Version
Software Name
Author
1
chemical shift assignment
Sparky
Goddard
2
data analysis
Sparky
Goddard
3
peak picking
Sparky
Goddard
4
structure solution
CYANA
Guntert, Mumenthaler and Wuthrich
5
refinement
CNSSOLVE
Brunger, Adams, Clore, Gros, Nilges and Read
6
geometry optimization
CNSSOLVE
Brunger, Adams, Clore, Gros, Nilges and Read
7
processing
NMRPipe
Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
8
data analysis
Procheck
Laskowski, MacArthur, Smith, Jones, Hutchinson, Morris, Moss and Thornton