2MPZ
Atomic model of the Abeta D23N "Iowa" mutant using solid-state NMR, EM and Rosetta modeling
SOLID-STATE NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 13C/13C spin diffusion | 25 uM [U-99% 13C; U-99% 15N] Abeta D23N, solid | 10 | 7.4 | ambient | 298 | ||
2 | 1D 13C PITHIRDs | 25 uM [U-99% 13C; U-99% 15N] Abeta D23N, solid | 10 | 7.4 | ambient | 298 | ||
3 | 1D 13C/15N REDOR | 25 uM [U-99% 13C; U-99% 15N] Abeta D23N, solid | 10 | 7.4 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 400 |
2 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
Rosetta refinement | RESIDUES 1-14 WERE HIGHLY DYNAMIC BASED ON SEPARATE SOLID-STATE NMR EXPERIMENTS AND WERE NOT INCLUDED IN THE FINAL MODELS | Rosetta |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 10000 |
Conformers Submitted Total Number | 5 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | WHILE INFORMATION FROM STEM MASS-PER-LENGTH MEASUREMENTS WAS USED TO ESTABLISH THE OVERALL 3-FOLD SYMMETRY OF THE SYSTEM, NO DETAILED EM MAP DENSITY WAS USED IN STRUCTURE REFINEMENT. THE REFINEMENT WAS BASED PRIMARILY ON THE SOLID-STATE NMR DATA |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | geometry optimization | Rosetta | Sgourakis and Baker | |
2 | structure solution | Rosetta | Sgourakis and Baker | |
3 | refinement | Rosetta | Sgourakis and Baker | |
4 | refinement | CS-ROSETTA |