2ME1
HIV-1 gp41 clade B double alanine mutant Membrane Proximal External Region peptide in DPC micelle
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D HNCO,HNCA,HN(CA)CB,HN(COCA)CB,HN(CO)CA,HN(CA)CO | 1 mM [U-100% 13C; U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 | |
2 | 3D C(CO)NH,H(CCO)NH,HCCH-TOCSY | 1 mM [U-100% 13C; U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 | |
3 | 3D 1H-13C NOESY | 1 mM [U-100% 13C; U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 | |
4 | 3D 1H-15N NOESY | 1 mM [U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 | |
5 | 3D HNHA | 1 mM [U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 | |
6 | 2D 1H-1H NOESY,TOCSY | 1 mM MPER-HXB2-AA, 100 mM [U-100% 2H] DPC | 100% D2O | 0 | 6.6 | ambient | 308 | |
7 | Q-J RDC | 1 mM [U-100% 13C; U-100% 15N] MPER-HXB2-AA, 100 mM [U-100% 2H] DPC, 20 mg/mL DNA nanotube | 90% H2O/10% D2O | 0 | 6.6 | ambient | 308 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 800 |
2 | Bruker | AVANCE | 750 |
3 | Bruker | AVANCE | 600 |
4 | Bruker | AVANCE | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | Structure models were calculated using TENSO module incorporating RDC restraints during the high temperature torsion angle dynamics annealing stage, and planeDisPot module incorporating EPR depth restraints during the subsequent low temperature Cartesian coordinate dynamics annealing stage. | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 30 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (closest to the average) |
Additional NMR Experimental Information | |
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Details | MODELS SUPERIMPOSED FROM RESIDUE 666 TO RESIDUE 682. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | 9 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
2 | data analysis | CARA | 1.8.4 | Rochus Keller |
3 | chemical shift assignment | CARA | 1.8.4 | Rochus Keller |
4 | peak picking | CARA | 1.8.4 | Rochus Keller |
5 | data analysis | TALOS | + | Shen, Cornilescu, Delaglio and Bax |
6 | structure solution | CYANA | 3.0c | Guntert, Mumenthaler and Wuthrich |
7 | refinement | X-PLOR NIH | 2.28 | Schwieters, Kuszewski, Tjandra and Clore |