7BPL

Solution NMR structure of NF1; de novo designed protein with a novel fold


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
22D 1H-13C HSQC aliphatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 950
32D 1H-13C HSQC aromatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
43D HNCO0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
53D CBCA(CO)NH0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
63D HNCACB0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
73D 1H-15N NOESY0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
83D HCCH-TOCSY aliphatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
93D HCCH-TOCSY aromatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
103D 1H-13C NOESY aliphatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
113D 1H-13C NOESY aromatic0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 800.1339
122D IPAP-HSQC0.9 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 950
132D IPAP-HSQC0.2 mM [U-100% 13C; U-100% 15N] NF1, 50 mM sodium chloride, 5.6 mM sodium phosphate, 1.1 mM potassium phosphate, 12 mg/mL Pf1 phage95% H2O/5% D2O57 mM7.41 atm303Bruker AVANCE III 950
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III800.1339
2BrukerAVANCE III950
NMR Refinement
MethodDetailsSoftware
simulated annealingAmber
NMR Ensemble Information
Conformer Selection Criteriatarget function
Conformers Calculated Total Number100
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionTopSpin3.2Bruker Biospin
2processingNMRPipe2012Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3chemical shift assignmentCYANA3.98Guntert, Mumenthaler and Wuthrich
4peak pickingMAGRO2.01.29Kobayashi, N.
5data analysisNMRView9.0Johnson, One Moon Scientific
8data analysisMAGRO2.01.14Kobayashi, N.
6structure calculationCYANA3.98Guntert, Mumenthaler and Wuthrich
7refinementAmber12Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman