2N2N
Tom1 negatively modulates binding of Tollip to phosphatidylinositol 3-phosphate via a coupled folding and binding mechanism
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 | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
2 | 3D CBCA(CO)NH | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
3 | 3D HNCO | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
4 | 3D HCACO | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
5 | 3D HNCACB | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
8 | 3D 1H-15N NOESY | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 | |
9 | 3D 1H-15N TOCSY | 0.8-1.0 mM [U-99% 13C; U-99% 15N] Tom1 GAT, 1.0-1.2 mM Tollip TBD, 50 uM DSS, 50 mM potassium chloride, 20 mM [U-2H] TRIS, 1 mM sodium azide, 1 mM [U-2H] DTT | 90% H2O/10% D2O | 70 | 7.0 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
2 | Varian | Agilent DD2 | 900 |
NMR Refinement | ||
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Method | Details | Software |
DISTANCE GEOMETRY, SIMULATED ANNEALING | DGSA-DISTANCE GEOMETRY SIMULATED ANNEALING | Rosetta |
NMR Ensemble Information | |
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Conformer Selection Criteria | all calculated structures submitted |
Conformers Calculated Total Number | 7500 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (score result from rosetta) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | Rosetta | Shen, Vernon, Baker and Bax | |
2 | processing | Rosetta | Shen, Vernon, Baker and Bax | |
3 | validation | Rosetta | Shen, Vernon, Baker and Bax | |
4 | data analysis | Rosetta | Shen, Vernon, Baker and Bax | |
5 | collection | Rosetta | Shen, Vernon, Baker and Bax | |
6 | structure solution | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
7 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
8 | validation | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
9 | data analysis | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
10 | collection | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
11 | structure solution | PSVS | Bhattacharya and Montelione | |
12 | processing | PSVS | Bhattacharya and Montelione | |
13 | validation | PSVS | Bhattacharya and Montelione | |
14 | data analysis | PSVS | Bhattacharya and Montelione | |
15 | collection | PSVS | Bhattacharya and Montelione | |
16 | structure solution | Sparky | Goddard | |
17 | processing | Sparky | Goddard | |
18 | validation | Sparky | Goddard | |
19 | data analysis | Sparky | Goddard | |
20 | collection | Sparky | Goddard | |
21 | structure solution | TALOS | Cornilescu, Delaglio and Bax | |
22 | processing | TALOS | Cornilescu, Delaglio and Bax | |
23 | validation | TALOS | Cornilescu, Delaglio and Bax | |
24 | data analysis | TALOS | Cornilescu, Delaglio and Bax | |
25 | collection | TALOS | Cornilescu, Delaglio and Bax | |
26 | structure solution | TopSpin | Bruker Biospin | |
27 | processing | TopSpin | Bruker Biospin | |
28 | validation | TopSpin | Bruker Biospin | |
29 | data analysis | TopSpin | Bruker Biospin | |
30 | collection | TopSpin | Bruker Biospin | |
31 | refinement | Rosetta | Shen, Vernon, Baker and Bax |