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Structure of antimicrobial peptide anoplin in DPC micelles
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D DQF-COSY
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide
95% H2O/5% D2O
0.015
6.5
ambient
310
2
2D 1H-1H TOCSY
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide
95% H2O/5% D2O
0.015
6.5
ambient
310
3
2D 1H-1H NOESY
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide
95% H2O/5% D2O
0.015
6.5
ambient
310
4
2D 1H-13C HSQC aliphatic
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide
95% H2O/5% D2O
0.015
6.5
ambient
310
5
2D 1H-13C HSQC aromatic
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide
95% H2O/5% D2O
0.015
6.5
ambient
310
6
pseudo-3D-inversion recovery weighted NOESY
3 mM anoplin, 150 mM [U-98% 2H] DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE, 10 mM potassium phosphate, 2 mM sodium azide, 0-10 mM Gd(DTPA-BMA)
95% H2O/5% D2O
0.015
6.5
ambient
310
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
AVANCE III
600
NMR Refinement
Method
Details
Software
molecular dynamics
THE ORIENTATION OF THE PEPTIDE WITHIN THE MICELLE WAS DETERMINED FROM EXPERIMENTAL DATA (PARAMAGNETIC RELAXATION ENHANCEMENTS). THE RESTRAINT FILE CONTAINS DISTANCE RESTRAINTS FROM PEPTIDE ATOMS TO THE MICELLE CENTER, WHICH IS REPRESENTED AS THE PSEUDOATOM X, RESIDUE UNX. FIRST STEP: IN VACUO WITH NOVA FORCE FIELD. SECOND STEP: IN EXPLICIT SOLVENT (WATER/MICELLE) WITH YASARA FORCE FIELD.