2MJQ

Structure of antimicrobial peptide anoplin in DPC micelles

SOLUTION NMR

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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.	TopSpin

NMR Ensemble Information
Conformer Selection Criteria	target function
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin		Bruker Biospin
2	data analysis	TopSpin		Bruker Biospin
3	data analysis	CARA		Keller and Wuthrich
4	structure solution	CYANA		Guntert, Mumenthaler and Wuthrich
5	refinement	YASARA		Yasara Biosciences
6	structure solution	TALOS+		Cornilescu, Delaglio and Bax
7	data analysis	TALOS+		Cornilescu, Delaglio and Bax