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Solution structure of reduced interstrand cross-link arising from S-alpha-methyl-gamma-OH-1,N2-propano-2'-deoxyguanosine in the 5'-CpG-3' DNA sequence
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 2mM in 0.25 mL; 10 mM NaH2PO4; 0.1 M NaCl; 50 uM Na2EDTA 99.996% D2O 0.1M NaCl 7.0 1 atm 303 2 DQF-COSY 2mM in 0.25 mL; 10 mM NaH2PO4; 0.1 M NaCl; 50 uM Na2EDTA 99.996% D2O 0.1M NaCl 7.0 1 atm 303 3 2D TOCSY 2mM in 0.25 mL; 10 mM NaH2PO4; 0.1 M NaCl; 50 uM Na2EDTA 99.996% D2O 0.1M NaCl 7.0 1 atm 303 4 2D NOESY 2mM in 0.25 mL; 10 mM NaH2PO4; 0.1 M NaCl; 50 uM Na2EDTA 9:1 H2O:D2O 0.1M NaCl 7.0 1 atm 286
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 800 2 Bruker AVANCE 600 3 Bruker AVANCE 500
NMR Refinement Method Details Software distance geometry
simulated annealing
molecular dynamics
matrix relaxation XwinNMR
NMR Ensemble Information Conformer Selection Criteria back calculated data agree with experimental NOESY spectrum Conformers Calculated Total Number 10 Conformers Submitted Total Number 1 Representative Model 10 (minimized average structure)
Additional NMR Experimental Information Details This structure was determined using standard 2D homonuclear techniques.
Computation: NMR Software # Classification Version Software Name Author 1 processing XwinNMR 3.5 Bruker 2 processing NMRPipe 2.3 Delaglio F et al. 3 data analysis Felix 2000 Accelrys, Inc. 4 iterative matrix relaxation MARDIGRAS 5.2.1 Borgias, B.A. et al. 5 refinement Amber 8.0 Case et al 6 data analysis CORMA 5.2 Keepers JW et al.