6MIE | pdb_00006mie

Solution NMR structure of the KCNQ1 voltage-sensing domain


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
13D HNCA0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
23D HNCO0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
33D HN(CO)CA0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
43D 1H-15N NOESY0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
53D HNCACB0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
62D 1H-15N HSQC0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
72D 1H-15N HSQC0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 600
83D H(CCO)NH0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 600
93D C(CO)NH0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 600
103D HCCH-COSY0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 600
112D 1H-13C HSQC aliphatic0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v Deuterated LMPG100% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
123D 1H-13C NOESY0.4 mM [U-100% 13C; U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v Deuterated LMPG100% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
132D 1H-15N HSQC0.4 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
143D 1H-15N NOESY0.4 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
152D IPAP-HSQC0.4 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
162D IPAP-HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 mM LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
172D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 mM LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
182D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
192D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
202D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
212D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
222D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
232D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
242D 1H-15N HSQC0.2 mM [U-100% 15N] KCNQ1-VSD, 50 mM MES, 0.5 mM EDTA, 2 mM TCEP, 4 % w/v LMPG95% H2O/5% D2O4 % (w/v) LMPG5.51 atm323Bruker AVANCE III 900
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III600
2BrukerAVANCE III900
NMR Refinement
MethodDetailsSoftware
molecular dynamics10 structures were solvated in an explicit hydrated DMPC bilayer and 100 ns of restrained molecular dynamics (rMD) were performed. Each trajectory was then extended another 190 ns with NMR restraints turned off. The last 100 ns of the trajectory seeded with the lowest energy rMD structure was divided into ten 10 ns blocks. The centroid of the most populated cluster for each 10 ns time block corresponds to models 1 through 10 in the ensemble. Model number 1 has the lowest RMSD to the average coordinates. Each model in the ensemble was scored with the NMR restraints and found to be largely consistent with the experimental data. It is important to note that the precision of the ensemble no longer is reflective of the precision of the XplorNIH simulated annealing step. Please see published methods for further details.Amber
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number150
Conformers Submitted Total Number10
Representative Model1 (closest to the average)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementAmber16Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
2structure calculationXPLOR-NIH2.48C.D. Schwieters, J.J. Kuszewski, N. Tjandra and G.M. Clore
3chemical shift assignmentSparkyNMRFAMGoddard
4peak pickingSparkyNMRFAMGoddard
5collectionTopSpin3.2Bruker Biospin
6processingTopSpin3.2Bruker Biospin