Solution NMR Structure of the Novel CH Zinc Finger from Makorin-3
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H TOCSY | 1.9 mM MKRN3-CH, 2.3 mM Zn, 1 mM DSS, 10 % [U-2H] D2O, 90 % H2O | 90% H2O/10% D2O | 1.9 mM | 6.0 | 1 atm | 280 | Bruker AVANCE NEO 800 |
| 2 | 2D 1H-1H NOESY | 1.9 mM MKRN3-CH, 2.3 mM Zn, 1 mM DSS, 10 % [U-2H] D2O, 90 % H2O | 90% H2O/10% D2O | 1.9 mM | 6.0 | 1 atm | 280 | Bruker AVANCE NEO 800 |
| 3 | 2D 1H-1H TOCSY | 2.2 mM ZFHX3-CH, 2.5 mM Zn, 1 mM DSS, 100 % [U-2H] D2O | 100% D2O | 2.2 mM | 6.2 | 1 atm | 280 | Varian INOVA 600 |
| 4 | 2D 1H-1H NOESY | 2.2 mM ZFHX3-CH, 2.5 mM Zn, 1 mM DSS, 100 % [U-2H] D2O | 100% D2O | 2.2 mM | 6.2 | 1 atm | 280 | Varian INOVA 600 |
| 5 | 2D 1H-15N HSQC | 1.9 mM MKRN3-CH, 2.3 mM Zn, 1 mM DSS, 10 % [U-2H] D2O, 90 % H2O | 90% H2O/10% D2O | 1.9 mM | 6.0 | 1 atm | 298 | Varian INOVA 600 |
| 6 | 2D 1H-13C HSQC | 1.9 mM ZFHX3-CH, 2.3 mM Zn, 1 mM DSS, 100 % [U-2H] D2O | 100% D2O | 2.2 mM | 6.2 | 1 atm | 280 | Varian INOVA 600 |
| 7 | 2D 1H-1H TOCSY | 1.9 mM MKRN3-CH, 2.3 mM Zn, 1 mM DSS, 10 % [U-2H] D2O, 90 % H2O | 90% H2O/10% D2O | 1.9 mM | 10.8 | 1 atm | 280 | Bruker AVANCE NEO 600 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| 2 | Bruker | AVANCE NEO | 800 |
| 3 | Bruker | AVANCE NEO | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| DGSA-distance geometry simulated annealing | Used for initial structure calculation and refinement. Structures are based on 268 NOE restraints, 55 dihedral restraints, 10 (x2) hydrogen bond restraints, 8 restraints to the zinc ion, and 9 restraints between the identified zinc ligands. | X-PLOR NIH |
| na | Used for finishing structure refinement steps and water refinement. | ARIA |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | CcpNmr Analysis | CCPN | |
| 2 | refinement | ARIA | Linge, O'Donoghue and Nilges | |
| 3 | data analysis | PSVS | Bhattacharya and Montelione | |
| 4 | geometry optimization | TALOS | Cornilescu, Delaglio and Bax | |
| 5 | structure calculation | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 7 | peak picking | CcpNmr Analysis | CCPN | |
