2LI8

The solution structure of the Lin28-ZnF domains bound to AGGAGAU of pre-let-7 miRNA


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
13D_15N-separated_NOESY 3D_13C-separated_NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
23D 1H-13C NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
32D 1H-15N HSQC10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
42D 1H-13C HSQC aliphatic10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
52D 1H-13C HSQC aromatic10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
63D CBCA(CO)NH10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
73D HNCACB10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
83D HNCO10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
93D H(CCO)NH10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
103D HCCH-TOCSY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
112D 1H-1H TOCSY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
122D-F1f-F2f-NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
132D-F2f-NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
143D-F3f-NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
152D 1H-15N HMQC10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
162D 1H-1H NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm303
172D 1H-1H NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm283
182D 1H-13C HSQC10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-10% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU100% D2O105.61 atm303
193D-F3fe-NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 13C; U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm283
203D 1H-15N NOESY10 mM [U-99% 2H] sodium acetate, 1.5 mM beta-mercaptoethanol, 1.6 mM ZnCl2, 0.8 mM [U-99% 15N] Lin28-ZnF, 0.8 mM AGGAGAU, 90% H2O, 10% D2O90% H2O/10% D2O105.61 atm283
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAV-III500
2BrukerAV-III600
3BrukerAV-III700
4BrukerAVANCE900
NMR Refinement
MethodDetailsSoftware
simulated annealingExplicit water AMBER ff99 25 psSparky
NMR Ensemble Information
Conformer Selection Criterialowest energy/fewest violation
Conformers Calculated Total Number200
Conformers Submitted Total Number20
Representative Model1 (fewest violations)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1chemical shift assignmentSparkyGoddard
2collectionTopSpinBruker Biospin
3processingTopSpinBruker Biospin
4structure solutionCYANA3.0Guntert, Mumenthaler and Wuthrich
5refinementAmberCase, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm