2MW2
Hha-H-NS46 charge zipper complex
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 | 0.015-0.030 mM protein_1, 0.10 mM [U-100% 15N] protein_2, 20 mM HEPES, 150 mM sodium chloride, 0.01 w/v sodium azide | 90% H2O/10% D2O | 0.16 | 7.0 | ambient | 295 | |
2 | 2D 1H-15N HSQC | 0.015-0.030 mM protein_1, 0.10 mM [U-100% 15N] protein_2, 20 mM HEPES, 150 mM sodium chloride, 0.01 w/v sodium azide | 90% H2O/10% D2O | 0.16 | 7.0 | ambient | 295 | |
3 | 2D 1H-15N HSQC | 0.9 mM [U-100% 15N] protein_1, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 | |
4 | 3D 1H-15N NOESY | 0.9 mM [U-100% 15N] protein_1, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 | |
5 | 3D 1H-15N TOCSY | 0.9 mM [U-100% 15N] protein_1, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 | |
6 | 2D 1H-15N HSQC | 0.9 mM [U-100% 15N] protein_2, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 | |
7 | 3D 1H-15N NOESY | 0.9 mM [U-100% 15N] protein_2, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 | |
8 | 3D 1H-15N TOCSY | 0.9 mM [U-100% 15N] protein_2, 150 mM sodium chloride, 0.01 w/v sodium azide, 20 mM sodium phosphate | 90% H2O/10% D2O | 0.20 | 7.0 | ambient | 295 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 800 |
2 | Bruker | AVANCE III | 600 |
NMR Refinement | ||
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Method | Details | Software |
Rigid-body/torsion angle simulated annealing, Cartesian Molecular dynamics | HADDOCK modelling consists of (i) rigid-body docking, (ii) semi-flexible refinement stage and (iii) final refinement in explicit solvent., Final gentle water simulated annealing refinement protocol using molecular dynamics in Cartesian space. | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 400 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | Delaglio, Zhengrong and Bax | |
2 | peak picking | NMRView | Johnson, One Moon Scientific | |
3 | chemical shift assignment | CARA | Keller and Wuthrich | |
4 | calculation engine | CNS | 2.0 | Brunger, Adams, Clore, Gros, Nilges and Read |
5 | data-driven docking using cns as structure calculation engine | HADDOCK | 2.1 | Alexandre Bonvin |
6 | nmr spectra acquisition | TopSpin | Bruker Biospin | |
7 | refinement | HADDOCK | 2.1 | Alexandre Bonvin |
8 | refinement | CNS | 2.0 | Brunger, Adams, Clore, Gros, Nilges and Read |