2MTV

Solution Structure of the YTH Domain of YT521-B in complex with N6-Methyladenosine containing RNA


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
22D 1H-13C HSQC aliphatic0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
32D 1H-13C HSQC aromatic0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
42D 1H-1H TOCSY0.8 mM [U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
52D 1H-1H NOESY0.8 mM [U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
63D CBCA(CO)NH0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
73D HNCO0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
83D HNCA0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
93D HNCACB0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
103D H(CCO)NH0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
113D 1H-15N NOESY0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
123D 1H-13C NOESY aliphatic0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
133D 1H-13C NOESY aromatic0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
142D 1H-13C HSQC aliphatic0.8 mM [U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
152D 1H-13C HSQC aromatic0.8 mM [U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
163D C(CO)NH0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
172D 1H -1H NOESY 13C F1-filtered F2-filtered0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
183D 1H-13C NOESY 13C F1-edited F3-filtered0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol100% D2O7ambient303
192D 1H -1H NOESY 13C15N F2-filtered0.8 mM [U-99% 13C; U-99% 15N] protein_1, 0.8 mM RNA (5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), 25 mM sodium phosphate, 25 mM sodium chloride, 10 mM beta-mercaptoethanol90% H2O/10% D2O7ambient303
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE900
2BrukerAVANCE700
3BrukerAVANCE600
4BrukerAVANCE500
NMR Refinement
MethodDetailsSoftware
simulated annealingSparky
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number50
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1chemical shift assignmentSparkyGoddard
2data analysisTALOSCornilescu, Delaglio and Bax
3collectionTopSpinBruker Biospin
4processingTopSpinBruker Biospin
5structure solutionCYANAGuntert, Mumenthaler and Wuthrich
6refinementAmberCase, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman