2N2F

Solution NMR structure of Dynorphin 1-13 bound to Kappa Opioid Receptor


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-1H TOCSY1 mM [U-15N-GFLI] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
22D 1H-1H NOESY1 mM [U-15N-GFLI] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
32D 1H-15N HSQC1 mM [U-15N-GFLI] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
42D 1H-13C HSQC1 mM [U-15N-GFLIR; U-13C-R] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
52D HNCACB1 mM [U-15N-GFLIR; U-13C-R] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
615N T1 T2 hetNOE1 mM [U-15N-GFLI] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
715N T21 mM [U-15N-GFLIR; U-13C-R] Dynorphin 1, 150 mM potassium chloride, 40 mM [U-2H] MES, 100 uM DSS, 10 uM KOR, 8 mM DDM, 1.6 mM CHS90% H2O/10% D2O6.1ambient280
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III800
2BrukerAVANCE800
3BrukerAVANCE III700
4BrukerAVANCE III600
NMR Refinement
MethodDetailsSoftware
simulated annealing, molecular dynamicsTopSpin
NMR Ensemble Information
Conformer Selection Criteriastructures with the least restraint violations
Conformers Calculated Total Number1000
Conformers Submitted Total Number10
Representative Model1 (fewest violations)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1processingTopSpin3.2Bruker Biospin
2peak pickingTopSpin3.2Bruker Biospin
3chemical shift assignmentTopSpin3.2Bruker Biospin
4geometry optimizationAmber14Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman
5structure solutionAmber14Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman
6refinementAmber14Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman