2LX0
Arced helix (ArcH) NMR structure of the reovirus p14 fusion-associated small transmembrane (FAST) protein transmembrane domain (TMD) in dodecyl phosphocholine (DPC) micelles
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 | 0.75 mM Partial 15N (8 of 32 amino acids) p14 TMD peptide, 150 mM [U-2H] DPC, 0.5 mM DSS, 0.2 mM sodium azide, 20 mM [U-2H] sodium acetate | 95% H2O/5% D2O | 5.0 | ambient | 310 | ||
2 | 2D 1H-1H TOCSY | 0.75 mM Partial 15N (8 of 32 amino acids) p14 TMD peptide, 150 mM [U-2H] DPC, 0.5 mM DSS, 0.2 mM sodium azide, 20 mM [U-2H] sodium acetate | 95% H2O/5% D2O | 5.0 | ambient | 310 | ||
3 | 2D 1H-1H NOESY | 0.75 mM Partial 15N (8 of 32 amino acids) p14 TMD peptide, 150 mM [U-2H] DPC, 0.5 mM DSS, 0.2 mM sodium azide, 20 mM [U-2H] sodium acetate | 95% H2O/5% D2O | 5.0 | ambient | 310 | ||
4 | 3D 1H-15N TOCSY | 0.75 mM Partial 15N (8 of 32 amino acids) p14 TMD peptide, 150 mM [U-2H] DPC, 0.5 mM DSS, 0.2 mM sodium azide, 20 mM [U-2H] sodium acetate | 95% H2O/5% D2O | 5.0 | ambient | 310 | ||
5 | 3D 1H-15N NOESY | 0.75 mM Partial 15N (8 of 32 amino acids) p14 TMD peptide, 150 mM [U-2H] DPC, 0.5 mM DSS, 0.2 mM sodium azide, 20 mM [U-2H] sodium acetate | 95% H2O/5% D2O | 5.0 | ambient | 310 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 700 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | X-PLOR NIH |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 50 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | X-PLOR NIH | 2.18 | Schwieters, Kuszewski, Tjandra and Clore |
2 | refinement | X-PLOR NIH | 2.18 | Schwieters, Kuszewski, Tjandra and Clore |
3 | collection | TopSpin | 2.1 | Bruker Biospin |
4 | processing | TopSpin | 2.1 | Bruker Biospin |
5 | chemical shift assignment | Sparky | 3.110 | Goddard |
6 | peak picking | Sparky | 3.110 | Goddard |
7 | visualization | MOLMOL | 2k.2 | Koradi, Billeter and Wuthrich |
8 | ensemble superposition | MOLMOL | 2k.2 | Koradi, Billeter and Wuthrich |
9 | rmsd calculation | MOLMOL | 2k.2 | Koradi, Billeter and Wuthrich |
10 | visualization | UCSF Chimera | 1.6.2 | Pettersen, Goddard, Huang, Couch, Greenblatt, Meng, Ferrin |
11 | distance measurement | UCSF Chimera | 1.6.2 | Pettersen, Goddard, Huang, Couch, Greenblatt, Meng, Ferrin |
12 | structure validation | ProcheckNMR | 3.5.4 | Laskowski and MacArthur |
13 | ramachandran plot statistics | ProcheckNMR | 3.5.4 | Laskowski and MacArthur |
14 | secondary structure analysis | DSSP | Kabsch, Sander; Joosten, Te Beek, Krieger, Hekkelman, Hooft, Schneider, Sander, Vriend |