2MFE

Csr/Rsm protein-RNA recognition - A molecular affinity ruler: RsmZ(SL2)/RsmE(dimer) 2:1 complex


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC1 mM [U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
23D 1H-15N NOESY1 mM [U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
32D 1H-1H NOESY1 mM [U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
42D 1H-1H NOESY1 mM [U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
52D 1H-13C HSQC1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
63D 1H-13C NOESY aliphatic1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
73D 1Fe3Ff NOESY1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
83D HCCH-TOCSY1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
93D HNCA1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
103D HNCACB1 mM [U-100% 13C; U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
112D 1H-1H TOCSY1 mM [U-100% 15N] RsmE, 1 mM SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
122D 1H-15N HSQC1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Ade/Ura RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
132D 1H-15N HSQC1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Cyt/Gua RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride95% H2O/5% D2O0.187.2ambient313
142D 1H-13C HSQC1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Ade/Ura RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
152D 1H-13C HSQC1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Cyt/Gua RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
163D 1H-13C NOESY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Ade/Ura RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
173D 1H-13C NOESY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Cyt/Gua RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
183D 1Fe3Ff NOESY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Ade/Ura RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
193D 1Fe3Ff NOESY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Cyt/Gua RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
203D HCCH-TOCSY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Ade/Ura RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
213D HCCH-TOCSY1 mM [U-100% 15N] RsmE, 1 mM [U-100% 13C; U-100% 15N]-Cyt/Gua RNA SL2(RsmZ), 0.05 mM potassium phosphate, 0.03 mM sodium chloride100% D2O0.187.2ambient313
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE500
2BrukerAVANCE600
3BrukerAVANCE700
4BrukerAVANCE900
NMR Refinement
MethodDetailsSoftware
simulated annealingTopSpin
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number999
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1processingTopSpinBruker Biospin
2chemical shift assignmentSparkyGoddard
3data analysisSparkyGoddard
4structure solutionCYANAGuntert, Mumenthaler and Wuthrich
5refinementAmberCase, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman