2DD6
Solution structure of Dermaseptin antimicrobial peptide truncated, mutated analog, K4-S4(1-13)a
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | DQF-COSY | Peptide concentration 2.2mM natural abundance; 20:1 molar ratio of DPC-d38 to peptide; 10% phosphate buffer; 10% D2O; 0.02% NaN3 | 10% phosphate buffer; 10% D2O; 0.02% NaN3 in triple distilled water | 78 mM | 7.4 | ambient | 303 | |
2 | 2D TOCSY | Peptide concentration 2.2mM natural abundance; 20:1 molar ratio of DPC-d38 to peptide; 10% phosphate buffer; 10% D2O; 0.02% NaN3 | 10% phosphate buffer; 10% D2O; 0.02% NaN3 in triple distilled water | 78 mM | 7.4 | ambient | 303 | |
3 | 2D NOESY | Peptide concentration 2.2mM natural abundance; 20:1 molar ratio of DPC-d38 to peptide; 10% phosphate buffer; 10% D2O; 0.02% NaN3 | 10% phosphate buffer; 10% D2O; 0.02% NaN3 in triple distilled water | 78 mM | 7.4 | ambient | 303 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
NMR Refinement | ||
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Method | Details | Software |
Distance geometry, simulated annealing | The structures are based on 250 restraints comprising: 83 intraresidual; 78 i,i+1; 34 i,i+2; 37 i,i+3; 18 long range | XwinNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy, structures with the least restraint violations |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 15 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | This structure was determined using standard 2D homonuclear techniques. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | XwinNMR | 3.1 | Bruker |
2 | processing | XwinNMR | 3.1 | Bruker |
3 | data analysis | Sparky | 3 | Goddard and Kneller, UCSF |
4 | structure solution | X-PLOR | 3.856 | Nilges, Kuszewski, Brnger |
5 | data analysis | Procheck | Laskowski, Rullmannn, MacArthur, Kaptein, Thornton | |
6 | refinement | X-PLOR | 3.856 | Nilges, Kuszewski, Brnger |