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 AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: BETA ANOMER
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
NOESY
2.5 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
D2O
10 mM sodium phosphate buffer
6.8
ambient
293
2
PE-COSY
2.5 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
D2O
10 mM sodium phosphate buffer
6.8
ambient
293
3
watergate-NOESY
2.5 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
10% D2O, 90% H2O
10 mM sodium phosphate buffer
6.8
ambient
278
4
31P-HCOSY
3 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
D2O
10 mM sodium phosphate buffer
6.8
ambient
298
5
31P-decoupled-PE-COSY
3 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
D2O
10 mM sodium phosphate buffer
6.8
ambient
298
6
31P-decoupled-J-scaled-DQCOSY
3 mM abasic site containing duplex oligonucleotide; 10 mM sodium phosphate buffer
D2O
10 mM sodium phosphate buffer
6.8
ambient
298
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Home-built
home-built
750
2
Home-built
home-built
600
NMR Refinement
Method
Details
Software
molecular dynamics
THE STRUCTURE IS BASED ON 475 NOE-DERIVED DISTANCE CONSTRAINTS AND 101 DIHEDRAL ANGLE RESTRAINTS.
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
Conformers Submitted Total Number
1
Additional NMR Experimental Information
Details
THE ABASIC SITE DEOXYRIBOSE 1H-1H COUPLING CONSTANTS AND THE DNA 31P-H3' COUPLING CONSTANTS WERE EXPERIMENTALLY DETERMINED. THIS INFORMATION WAS USED IN THE MODELING PROTOCOL.