1JWD
Ca2+-induced Structural Changes in Calcyclin: High-resolution Solution Structure of Ca2+-bound Calcyclin.
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 2 mM calcyclin, 50 MM TRIS buffer, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
2 | 3D_13C-separated_NOESY | 2 mM 15N, 13C-enriched calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
3 | 3D_15N-separated_NOESY | 2 mM 15N, 13C-enriched calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
4 | 3D_HACAHB | 2 mM 15N, 13C-enriched calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
5 | 3D_13C-filter,13C-edited_NOESY | 1:1 15N,13C-enriched:unlabled calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
6 | 3D_15N-separated_NOESY | 15N-enriched calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | 90% H2O/10% D2O | 30 mM CaCl2 | 7.0 | ambient | 300 | |
7 | 2D_13C_HSQC | 10% 13C-enriched calcyclin, 50 mM TRIS-buffer, 0.05% NaN3, 30 mM CaCl2 | D2O | 30 mM CaCl2 | 7.0 | ambient | 300 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 750 |
2 | Bruker | DRX | 600 |
3 | Bruker | AMX | 500 |
NMR Refinement | ||
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Method | Details | Software |
distance geometry, restrained molecular dynamics | The calculations were carried out using a total of 3104 distance and 294 torsion angle constraints. Starting structures were generated as monomers (one chain) with no intersubunit constraints using distance geometry followed by restrained molecular dynamics (rMD). The dimer structures were generated by rMD docking driven by the intersubunit NOEs using two arbitrarily selected starting subunit structures. Each dimer was further refined by rMD with all constraints. | Felix |
NMR Ensemble Information | |
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Conformer Selection Criteria | The program Findfam was used to establish that the number of structures required to accurately represent the ensemble was less than 22 (the number selected to represent previous S100A6 ensembles). Structures were ordered by lowest restraint violations, then accepted if total molecular energy and each contributing term was within two standard deviations of the mean. The 22 structures with least restraint violations (energy penalty and magnitude of largest violation) all met these criteria. |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 22 |
Representative Model | 1 (closest to the average) |
Additional NMR Experimental Information | |
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Details | Dimer constraints were obtained from the 3D_13C-filter,13C-edited experiment in combination with 3D_13C-separated_NOESY |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | data analysis | Felix | 97 | MSI |
2 | structure solution | DIANA | 2.8 | Guntert, Braun & Wuthrich |
3 | refinement | Amber | 4.1 | Pearlmann, Case, Caldwell, Ross, Cheatham III, Ferguson, Seibel, Singh, Weiner & Kollman |
4 | data analysis | FINDFAM | 1.0 | Smith, Chazin & Case |