8ULM
Chickpea (Cicer arientinum) nodule-specific cysteine-rich peptide NCR13: Solution NMR structure of the isomer with C4:C23, C15:C30, and C10:C28 disulfide bonds
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N HSQC | 20 mM sodium acetate, 50 mM sodium chloride | 93% H2O/7% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
2 | 2D 1H-13C HSQC aliphatic | 20 mM sodium acetate, 50 mM sodium chloride | 100% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
3 | 2D 1H-13C HSQC aromatic | 20 mM sodium acetate, 50 mM sodium chloride | 100% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
4 | 2D 1H-1H NOESY | 20 mM sodium acetate, 50 mM sodium chloride | 100% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
5 | 2D 1H-1H TOCSY | 20 mM sodium acetate, 50 mM sodium chloride | 100% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
6 | 2D 1H-15N HSQC | 20 mM sodium acetate, 50 mM sodium chloride | 100% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
10 | 3D 1H-15N TOCSY | 20 mM sodium acetate, 50 mM sodium chloride | 93% H2O/7% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
9 | 2D 1H-1H NOESY | 20 mM sodium acetate, 50 mM sodium chloride | 93% H2O/7% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
8 | 2D 1H-1H TOCSY | 20 mM sodium acetate, 50 mM sodium chloride | 93% H2O/7% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
11 | 3D 1H-13C NOESY | 20 mM sodium acetate, 50 mM sodium chloride | 93% H2O/7% D2O | 70 mM | 5.3 | 1 atm | 293 | Varian INOVA 600 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | It was not possible to verify the disulfide bonding pattern using mass spectrometry or other methods. Therefore the alphafold predicted disulfide pattern was used in the structure calculations. The structure was first solved using CYANA and then refined in explicit water adding 10% to the upper bound of the NOE restraints. | CNS |
NMR Ensemble Information | |
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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 | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | Felix | 2007 | Accelrys Software Inc. |
2 | structure calculation | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
3 | refinement | CNS | Brunger, Adams, Clore, Gros, Nilges and Read | |
4 | peak picking | Poky | Manthey, Tonelli, Clos II, Rahimi, Markley and Lee | |
5 | data analysis | PSVS | 3.135 | Bhattacharya and Montelione |
6 | data analysis | TALOS+ | unknown |