1OSR | pdb_00001osr

Structural study of dna duplex containaing a n-(2-deoxy-beta-erytho-pentofuranosyl) formamide frameshift by nmr and restrained molecular dynamics


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
1NOESY2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA99.9% D2O10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA6.5AMBIENT290
2COSY2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA99.9% D2O10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA6.5AMBIENT290
3DQFCOSY2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA99.9% D2O10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA6.5AMBIENT290
4TOCSY2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA99.9% D2O10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA6.5AMBIENT290
5HSQC 1H-31P2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA99.9% D2O10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA6.5AMBIENT290
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE600
2BrukerAVANCE500
NMR Refinement
MethodDetailsSoftware
MOLECULAR MODELING; SIMULATED ANNEALING; RESTRAINED MOLECULAR DYNAMICS SIMULATIONSAmber
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
Conformers Submitted Total Number2
Representative Model2 (those which were used to initiate molecular dynamic simulations)
Additional NMR Experimental Information
DetailsTHE STRUCTURES WERE DETERMINED USING PROTON NMR FOLLOWED BY DISTANCE RESTRAINED MOLECULAR DYNAMICS SIMULATIONS. TWO REPRESENTATIVE STRUCTURES OF THE TWO ISOMER CIS AND TRANS FOR THE FORMAMIDE RESIDUE ARE PRESENTED.
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementAmberKOLLMAN
2refinementMORCADLEBRET
3refinementMOLMOL2.6Koradi, Wuthrich
4processingXwinNMR2.5BRUKER