2MMA
NMR-based docking model of GrxS14-BolA2 apo-heterodimer from Arabidopsis thaliana
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 | 0.12 mM [U-100% 15N] BolA2, 0.012-0.24 mM GrxS14 | 90% H2O/10% D2O | 0.05 | 7 | ambient | 298 | |
2 | 2D 1H-15N HSQC | 0.12 mM [U-100% 15N] GrxS14, 0.012-0.24 mM BolA2 | 90% H2O/10% D2O | 0.05 | 7 | ambient | 298 | |
3 | 2D 1H-15N HSQC | 0.12 mM [U-100% 15N] GrxS14 | 90% H2O/10% D2O | 0.05 | 7 | ambient | 298 | |
4 | 2D 1H-15N HSQC | 0.12 mM [U-100% 15N] BolA2 | 90% H2O/10% D2O | 0.05 | 7 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 600 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics, energy minimization | Energy minimization using the YASARA force field. The structure was moved to a nearby (local) minimum, with removal of clashes and small errors. | NMRView |
NMR Ensemble Information | |
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Conformer Selection Criteria | all calculated structures submitted |
Conformers Calculated Total Number | 1 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | peak picking | NMRView | Johnson, One Moon Scientific | |
2 | chemical shift assignment | NMRView | Johnson, One Moon Scientific | |
3 | structure solution | GRAMM-X_Protein-Protein_Docking_Web_Server | 1.2.0 | Tovchigrechko |
4 | geometry optimization | YASARA_Energy_Minimization_Server | Krieger | |
5 | refinement | YASARA_Energy_Minimization_Server | Krieger | |
6 | refinement | GRAMM-X_Protein-Protein_Docking_Web_Server | Tovchigrechko |