7RSE
NMR-driven structure of the KRAS4B-G12D "alpha-beta" dimer on a lipid bilayer nanodisc
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-13C TROSY | 80 uM ILV 13C-methyl; Lys 15N-amide KRAS4B | 90% H2O/10% D2O | 100 mM | 7.4 | 1 atm | 288 | Bruker AVANCE III 800 |
2 | 2D 1H-15N HSQC | 80 uM ILV 13C-methyl; Lys 15N-amide KRAS4B | 90% H2O/10% D2O | 100 mM | 7.4 | 1 atm | 288 | Bruker AVANCE III 800 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III | 800 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | PDB entry 4DSO was refined and then used the build the model for GTPase KRas. | HADDOCK |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 1000 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | Bruker Biospin | |
2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
3 | data analysis | NMRView | Johnson, One Moon Scientific | |
4 | refinement | HADDOCK | Bonvin | |
5 | structure calculation | HADDOCK | Bonvin |