5JI4
Solution structure of the de novo mini protein gEEHE_02
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 93% H2O/7% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 750 |
| 2 | 2D 1H-13C HSQC aliphatic | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 100% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 750 |
| 3 | 3D 1H-15N NOESY | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 93% H2O/7% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 500 |
| 4 | 2D 1H-1H TOCSY | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 100% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 750 |
| 5 | 2D 1H-1H NOESY | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 100% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 750 |
| 6 | Deuterium Exchange | 1 mM [U-99% 15N] W37, 50 mM sodium chloride, 25 mM sodium acetate | 100% D2O | 75 mM | 4.8 | 1 atm | 293 | Varian INOVA 500 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 500 |
| 2 | Varian | INOVA | 750 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| molecular dynamics | STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY USING CYANA (AUTOMATED NOESY ASSIGNMENTS). A TOTAL OF 20 STRUCTURES OUT OF 100 WITH LOWEST TARGET FUNCTION FROM THE FINAL CYANA CALCULATION WERE TAKEN AND REFINED BY RESTRAINED MOLECULAR DYNAMICS/ENERGY MINIMIZATION IN EXPLICIT WATER (CNS) AFTER ADDING 0% TO THE UPPER BOUNDARY LIMIT OF THE DISTANCE RESTRAINTS AND THE VDW LIMIT TO THE LOWER RESTRAINT. PARAM19 WAS USED FOR THE WATER REFINEMENT CALCULATIONS. | CNS |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | target function |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | Felix | 2007 | Accelrys Software Inc. |
| 2 | structure calculation | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 6 | refinement | CNS | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
| 5 | data analysis | Sparky | 3.115 | Goddard |
| 3 | data analysis | PSVS | 1.5 | Bhattacharya and Montelione |
| 4 | peak picking | Sparky | 3.115 | Goddard |
