1KVH

NCSi-gb-bulge-DNA complex induced formation of a DNA bulge structure by a molecular wedge ligand-post-activated neocarzinostatin chromophore


SOLUTION NMR Experimental Data


Experimental Details
Sample Conditions
Sample Contentsca. 1 mM NCSi-gb-bulge-DNA complex; 0.1 M NaCl, 10 mM sodium phosphate, and 0.1 mM EDTA buffer (pH 6.4); 90% H2O, 10% D2O
Solvent90% H2O, 10% D2O
Ionic Strength0.1M NACL, 10 MM SODIUM PHOSPHATE
pH6.4
Pressuren/a
Temperature (K)270
Experiment(s):2D NOESY
Sample Contentsca. 1 mM NCSi-gb-bulge-DNA complex; 0.1 M NaCl, 10 mM sodium phosphate, and 0.1 mM EDTA buffer (pH 6.4); 99.96% D2O
Solvent99.96% D2O
Ionic Strength0.1M NACL, 10 MM SODIUM PHOSPHATE
pH6.4
Pressuren/a
Temperature (K)278
Experiment(s):2D NOESY, DQF-COSY, PE-COSY, TOCSY, H-P COSY
Spectrometer Information
Manufacturer Model Field Strength
Bruker AMX 600.0
NMR Refinement
Method distance geometry (DG), restrained molecular dynamics (rMDS), and relaxation matrix refinement
Details A total of 681 NMR restraints is used to derive the final refined structures. The total restraints consist of 590 of NOE-derived distance restraints and 91 of dihedral angle restraints. Especially, 85 of intermolecular distance restraints are derived which represent the interaction between the drug and the bulge duplex.
NMR Ensemble Information
Conformer Selection Criteria all calculated structures submitted
Conformers Calculated Total Number 7
Conformers Submitted Total Number 7
Additional NMR Experimental Information
1 This structure was determined using 2D homonuclear and heteronuclear techniques
Computation: NMR Software
# Classification Software Name Author
1 refinement X-PLOR 3.01 Brunger