2L5A
Structural basis for recognition of centromere specific histone H3 variant by nonhistone Scm3
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N TROSY | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
2 | 2D 1H-1H NOESY | 0.8-0.85 mM scCSH-6 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
3 | 2D 1H-13C HMQC | 0.8-0.85 mM [U-13C methyl; U-15N; U-2H] scCSH-3 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
4 | 3D trHNCACB | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
5 | 3D trHNCOCACB | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
6 | 3D trHNCA | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
7 | 3D trHNCOCA | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
8 | 3D trHNCO | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
9 | 3D trHNCACO | 0.8-0.85 mM [U-100% 15N] scCSH-2 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
10 | 3D HCCH-TOCSY | 0.8-0.85 mM [U-13C ; U-15N] scCSH-5 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
11 | 3D CCCH-TOCSY | 0.8-0.85 mM [U-13C ; U-15N] scCSH-5 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
12 | 3D HBHA(CO)NH | 0.8-0.85 mM [U-13C ; U-15N] scCSH-5 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
13 | 3D H(CCO)NH | 0.8-0.85 mM [U-13C ; U-15N] scCSH-5 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
14 | 3D 1H-15N NOESY | 0.8-1.0 mM [U-100% 15N] scCSH-1 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
15 | 3D 1H-15N NOESY | 0.8-0.85 mM [U-13C methyl; U-15N; U-2H] scCSH-3 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
16 | 3D 1H-13C NOESY | 0.8-0.85 mM [U-13C ; U-15N] scCSH-5 | 100% D2O | 0.00 | 5.4 | ambient atm | 308 | |
17 | 3D 1H-13C NOESY | 0.8-0.85 mM [U-13C methyl; U-15N; U-2H] scCSH-3 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 | |
18 | 3D HCCH-TOCSY | 0.8-0.85 mM [U-13C ; U-15N; 35%-2H] scCSH-4 | 90% H2O/10% D2O | 0.00 | 5.4 | ambient atm | 308 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
2 | Bruker | DRX | 600 |
3 | Bruker | DRX | 800 |
4 | Bruker | DRX | 900 |
5 | Varian | INOVA | 800 |
NMR Refinement | ||
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Method | Details | Software |
DGSA-distance geometry simulated annealing, molecular dynamics | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | data analysis | NMRPipe | updated version | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
2 | data analysis | NMRView | 7.9.1 | Johnson, One Moon Scientific |
3 | data analysis | TALOS | updated version | Cornilescu, Delaglio and Bax |
4 | structure solution | X-PLOR NIH | 2.25 | Schwieters, Kuszewski, Tjandra and Clore |
5 | refinement | X-PLOR NIH | 2.25 | Schwieters, Kuszewski, Tjandra and Clore |
6 | structure evaluation | ProcheckNMR | Laskowski and MacArthur | |
7 | pdb display | MOLMOL | pyMol | Koradi, Billeter and Wuthrich |
8 | structure evaluation | MolProbity | 3.17 | Richardson |