1Y0J
Zinc fingers as protein recognition motifs: structural basis for the GATA-1/Friend of GATA interaction
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | HNCO | 0.5mM GNF U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
2 | HNCA | 0.5mM GNF U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
3 | HNCA | 0.5mM USF1 U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
4 | HNCOCA | 0.5mM USF1 U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
5 | HNCA | 0.5mM GNF U-15N,13C; 0.6mM USF1; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
6 | CBCA(CO)NH | 0.5mM GNF U-15N,13C; 0.6mM USF1; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
7 | 15N, 13C double decoupled NOESY | 0.5mM GNF U-15N,13C; 0.6mM USF1; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
8 | HCCH-TOCSY | 0.5mM GNF U-15N,13C; 0.6mM USF1; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
9 | 15N, 13C double half-filtered NOESY | 0.5mM GNF; 0.6mM USF1 U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 | ||
10 | hncacb | 0.5mM GNF; 0.6mM USF1 U-15N,13C; 2mM tris-carboxyethylphosphine (TCEP); 1mM zinc sulphate; 20mM Sodium Acetate | 95% H2O/5% D2O | 5.5 | ambient | 280 |
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 |
simulated annealing molecular dynamics torsion angle dynamics | Standard triple-resonance NMR spectroscopy was first used to determine the preliminary structure of the complex. Since the backbone folds of both GNF and USF1 did not appear to be substantially altered to those of the proteins in isolation, the computer program Haddock was used to dock the two partner proteins using intermolecular NOEs obtained from double half-filtered NOESY experiments, and ambiguous restraints derived from mutagenesis and NMR titration experiments. | XwinNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | Other commonly used standard triple-resonance NMR experiments were also recorded. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | XwinNMR | 2.5 | Bruker |
2 | data analysis | XEASY | 1.3.13 | Bartels et al |
3 | structure solution | ARIA | 1.2 | Linge et al |
4 | structure solution | HADDOCK | 1.0 | Donminguez et al |
5 | refinement | HADDOCK | 1.0 | Donminguez et al |