7QB3 | pdb_00007qb3

Solution structure of a lanthanide-binding DNA aptamer


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride100% D2OBruker AVANCE III 700
22D 1H-13C HSQC700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride100% D2OBruker AVANCE III 700
32D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride100% D2OBruker AVANCE III 700
42D 1H-31P COSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride100% D2OBruker AVANCE III 700
52D 1H-1H NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Europium chloride100% D2OBruker AVANCE III 700
62D 1H-13C HSQC700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Europium chloride100% D2OBruker AVANCE III 700
72D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Europium chloride100% D2OBruker AVANCE III 700
82D 1H-31P COSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Europium chloride100% D2OBruker AVANCE III 700
92D NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Ytterbium acetate100% D2OBruker AVANCE III 700
102D 1H-13C HSQC700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Ytterbium acetate100% D2OBruker AVANCE III 700
112D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Ytterbium acetate100% D2OBruker AVANCE III 700
122D 1H-31P COSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Ytterbium acetate100% D2OBruker AVANCE III 700
132D NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM cerium chloride100% D2OBruker AVANCE III 700
142D 1H-13C HSQC700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM cerium chloride100% D2OBruker AVANCE III 700
162D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM cerium chloride100% D2OBruker AVANCE III 700
172D 1H-31P COSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM cerium chloride100% D2OBruker AVANCE III 700
182D NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM thulium chloride100% D2OBruker AVANCE III 700
192D 1H-13C HSQC700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM thulium chloride100% D2OBruker AVANCE III 700
202D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM thulium chloride100% D2OBruker AVANCE III 700
212D 1H-31P COSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM thulium chloride100% D2OBruker AVANCE III 700
222D NOESY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride90% H2O/10% D2OBruker AVANCE III 700
232D 1H-1H TOCSY700 uM Lanthanide-binding aptamer, 10 mM cacodylate, 150 mM sodium chloride, 700 uM Lutetium chloride90% H2O/10% D2OBruker AVANCE III 700
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III700
NMR Refinement
MethodDetailsSoftware
simulated annealingAmber
NMR Ensemble Information
Conformer Selection Criteriatarget function
Conformers Calculated Total Number100
Conformers Submitted Total Number20
Representative Model1 (target function)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementAmberCase, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
2structure calculationAmberCase, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3chemical shift assignmentNMRFAM-SPARKYNMRFAM
4peak pickingNMRFAM-SPARKYNMRFAM