NMR structure of transmembrane segment IV of the NHE1 isoform of the Na+/H+ exchanger
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 2 mM TM IV, unlabelled; 1 mM DSS | CDCl3:CD3OH:H2O (4:4:1 v:v:v) | ambient | 303 | |||
| 2 | 2D TOCSY | 2 mM TM IV, unlabelled; 1 mM DSS | CDCl3:CD3OH:H2O (4:4:1 v:v:v) | ambient | 303 | |||
| 3 | DQF-COSY | 2 mM TM IV, unlabelled; 1 mM DSS | CDCl3:CD3OH:H2O (4:4:1 v:v:v) | ambient | 303 | |||
| 4 | HNHA | 2 mM TM IV, U-15N; 1 mM DSS | CDCl3:CD3OH:H2O (4:4:1 v:v:v) | ambient | 303 | |||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 800 |
| 2 | Varian | UNITY | 600 |
| 3 | Varian | INOVA | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | 15 rounds of simulated annealing were carried out to optimize included NOE contacts and lengths, as well as J-HNHA. Finally, homoserine lactone was included. The ensemble of structures given is superposed over the region I169-F176. Other useful superpositions that should be examined are D159-L163 and L165-P168. | VNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 1000 |
| Conformers Submitted Total Number | 100 |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques with the exception that HNHA J-coupling constants were incorporated. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | VNMR | various | Varian Inc. |
| 2 | processing | NMRPipe | 2.3 | Frank Delaglio, Stephan Grzesiek, Guang Zhu, Geerten W. Vuister, John Pfeifer, and Ad Bax |
| 3 | data analysis | Sparky | 3.109 and 3.110 | T. D. Goddard and D. G. Kneller |
| 4 | structure solution | CNS | 1.1 | A.T.Brunger, P.D.Adams, G.M.Clore, W.L.Delano, P.Gros, R.W.Grosse-Kunstleve, J.-S.Jiang, J.Kuszewski, M.Nilges, N.S.Pannu, R.J.Read, L.M.Rice, T.Simonson, G.L.Warren |
| 5 | refinement | CNS | 1.1 | A.T.Brunger, P.D.Adams, G.M.Clore, W.L.Delano, P.Gros, R.W.Grosse-Kunstleve, J.-S.Jiang, J.Kuszewski, M.Nilges, N.S.Pannu, R.J.Read, L.M.Rice, T.Simonson, G.L.Warren |
