A key amino acid in the control of different functional behavior within the triheme cytochrome family from Geobacter sulfurreducens
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 0.4 mM [U-100% 15N] L6F polypeptide, 3 mM PROTOPORPHYRIN IX CONTAINING FE, 45 mM sodium phosphate, 0.04 % sodium azide | 93% H2O/7% D2O | 45 | 7.1 | ambient | 298 | |
| 2 | 2D 1H-1H TOCSY | 1 mM L6F polypeptide, 3 mM PROTOPORPHYRIN IX CONTAINING FE, 45 mM sodium phosphate, 0.04 % sodium azide | 93% H2O/7% D2O | 100 | 7.1 | ambient | 298 | |
| 3 | 2D 1H-1H COSY | 1 mM L6F polypeptide, 3 mM PROTOPORPHYRIN IX CONTAINING FE, 45 mM sodium phosphate, 0.04 % sodium azide | 93% H2O/7% D2O | 100 | 7.1 | ambient | 298 | |
| 4 | 2D 1H-1H NOESY | 1 mM L6F polypeptide, 3 mM PROTOPORPHYRIN IX CONTAINING FE, 45 mM sodium phosphate, 0.04 % sodium azide | 93% H2O/7% D2O | 100 | 7.1 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | TopSpin | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | TopSpin | Bruker Biospin | |
| 2 | collection | TopSpin | Bruker Biospin | |
| 3 | chemical shift assignment | Sparky | Goddard | |
| 4 | chemical shift calculation | PARADYANA | Turner, D. L. Brennan, L. Chamberlin, S. G. Louro, R. O. Xavier, A. V. | |
| 5 | refinement | PARADYANA | Turner, D. L. Brennan, L. Chamberlin, S. G. Louro, R. O. Xavier, A. V. | |
| 6 | superimposition | MOLMOL | Koradi, Billeter and Wuthrich | |
| 7 | visual inspection | MOLMOL | Koradi, Billeter and Wuthrich | |
| 8 | validation | CING | Nabuurs, Spronk, Krieger, Maassen, Vriend and Vuister | |
