2OI3
NMR Structure Analysis of the Hematopoetic Cell Kinase SH3 Domain complexed with an artificial high affinity ligand (PD1)
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D_13C-separated_NOESY | 1.3mM Hck-SH3 U-13C, U-15N: 1.3mM PD1, 20mM KPO4, 20mM NaCl, pH 6.7, 93% H2O, 7% D2O | 93% H2O/7% D2O | 20mM KPO4, 20mM NaCl | 6.7 | 1 atm | 298 | |
2 | 3D_15N-separated_NOESY | 1.3mM Hck-SH3 U-13C, U-15N: 1.3mM PD1, 20mM KPO4, 20mM NaCl, pH 6.7, 93% H2O, 7% D2O | 93% H2O/7% D2O | 20mM KPO4, 20mM NaCl | 6.7 | 1 atm | 298 | |
3 | 3D_13C/15N-filtered/edited NOESY | 1.3mM Hck-SH3 U-13C, U-15N: 1.3mM PD1, 20mM KPO4, 20mM NaCl, pH 6.7, 93% H2O, 7% D2O | 93% H2O/7% D2O | 20mM KPO4, 20mM NaCl | 6.7 | 1 atm | 298 | |
4 | 2D_13C/15N-double filtered NOESY | 1.3mM Hck-SH3 U-13C, U-15N: 1.3mM PD1, 20mM KPO4, 20mM NaCl, pH 6.7, 93% H2O, 7% D2O | 93% H2O/7% D2O | 20mM KPO4, 20mM NaCl | 6.7 | 1 atm | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
2 | Varian | INOVA | 800 |
NMR Refinement | ||
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Method | Details | Software |
Simulated annealing with generalized born solvent model and NMR distance constraints | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | Minimized average structure |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | 2.3 | Delaglio |
2 | data analysis | CARA/NEASY | 1.3.1 | Keller |
3 | refinement | RADAR | 0.9b | Herrmann |
4 | refinement | Amber | 8.0 | Case |
5 | processing | VnmrJ | 1.1d | Varian, Inc. |
6 | structure solution | CYANA | 1.1 | Guentert |