1SX1
Solution NMR Structure and X-ray Absorption Analysis of the C-Terminal Zinc-Binding Domain of the SecA ATPase
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | DQF-COSY | 1.7mM SecA Zinc Binding Domain NA; 20mM deuterated Pipes buffer, 50mM NaCl, 5mM NaN3, 0.5mM TCEP, 3.4mM ZnCl2 | 100% D2O | 50mM NaCl, 5mM NaN3, 3.4mM ZnCl2 | 7.0 | ambient | 298 | |
| 2 | 2D NOESY | 3.5mM SecA Zinc Binding Domain NA; 20mM deuterated Pipes buffer, 50mM NaCl, 5mM NaN3, 0.5mM TCEP, 7mM ZnCl2, 90% H2O, 10% D2O | 90% H2O/10% D2O | 50mM NaCl, 5mM NaN3, 7mM ZnCl2 | 7.0 | ambient | 298 | |
| 3 | 2D NOESY | 3.5mM SecA Zinc Binding Domain NA; 20mM deuterated Pipes buffer, 50mM NaCl, 5mM NaN3, 0.5mM TCEP, 7mM ZnCl2 | 100% D2O | 50mM NaCl, 5mM NaN3, 7mM ZnCl2 | 7.0 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | UNITY | 500 |
| 2 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | structures based on 317 restraints, 274 are NOE-derived distance restraints, 33 are dihedral angle restraints, and 10 are restraints for the tetrahedral coordination of zinc by 3Cys and 1 His. | CNS |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard two-dimensional 1H NMR techniques. This set of structures is the calculation of the final fold of the domain using restraints for zinc coordination based on EXAFS data for this domain. A second set of structures has been deposited that shows the calculation of the initial fold of the ZBD without using zinc restraints. For remark 500: The bond length is specificed by CNS and not a problem with the structure refinement. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | CNS | 1.1 | Brunger et al. |
| 2 | processing | NMRPipe | 2.1 | Delaglio et al. |
| 3 | processing | VNMR | 6.1c | Varian |
| 4 | data analysis | Pipp/Stapp | 4.3.3 | Garrett et al. |
| 5 | refinement | CNS | 1.1 | Brunger et al. |
