7BQS | pdb_00007bqs

Solution NMR structure of fold-U Nomur; de novo designed protein with an asymmetric all-alpha topology


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
22D 1H-13C HSQC aliphatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
32D 1H-13C HSQC aromatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
43D HNCO0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
53D HN(CA)CO0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
63D HNCA0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
73D HN(CO)CA0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
83D CBCA(CO)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
93D HNCACB0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
103D C(CO)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
113D H(CCO)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
123D (H)N(CA)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
133D H(NCA)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
163D HBHA(CO)NH0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
173D HNHAHB0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
143D HCCH-TOCSY aliphatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
153D HCCH-TOCSY aromatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 600
183D 1H-15N NOESY0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
193D 1H-13C NOESY aliphatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
203D 1H-13C NOESY aromatic0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
212D 1H-15N HSQC IPAP0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
222D 1H-15N HSQC IPAP0.4 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 mM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail, 10 mg/mL Pf1 phage95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
233D J-HNCO0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
243D J-HNCO0.4 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 mM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail, 10 mg/mL Pf1 phage95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
253D J-HN(CO)CA0.8 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 uM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
263D J-HN(CO)CA0.4 mM [U-100% 13C; U-100% 15N] foldU5, 1.06 mM potassium phosphate, 2.97 mM sodium phosphate, 155.2 mM sodium chloride, 10 mM EDTA, 0.02 % sodium azide, 0.16 % w/w protease inhibitor complete cocktail, 10 mg/mL Pf1 phage95% H2O/5% D2O160 mM7.41 atm303Bruker AVANCE III 900
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III600
2BrukerAVANCE III700
3BrukerAVANCE III900
NMR Refinement
MethodDetailsSoftware
molecular dynamicsAmber
NMR Ensemble Information
Conformer Selection Criteriatarget function
Conformers Calculated Total Number200
Conformers Submitted Total Number20
Representative Model1 (target function)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionTopSpin3.5Bruker Biospin
2processingNMRPipe2017Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3processingqMDD2.6Orekhov, V. Jaravine, M. Mayzel, K. Kazimierczuk
4peak pickingMAGRO2.01.32Kobayashi, N.
5chemical shift assignmentMAGRO2.01.32Kobayashi, N.
6chemical shift assignmentCYANA3.98Guntert, Mumenthaler and Wuthrich
7data analysisNMRView9.0Johnson, One Moon Scientific
8data analysisTALOS2017Cornilescu, Delaglio and Bax
9structure calculationCYANA3.98Guntert, Mumenthaler and Wuthrich
10refinementAmber12Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman