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Suboptimization of a glycine rich peptide allows the combinatorial space exploration for designing novel antimicrobial peptides
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H TOCSY 100 mM dodecylphosphocholine, 5 % D2O, 1 mM peptide, 5 % sodium 2,2-dimethyl-2-silapentane-5-sulfonate, 90 % H2O 90% H2O/10% D2O 0.01 4 1 atm 289 Bruker AVANCE III 500 2 2D 1H-1H NOESY 100 mM dodecylphosphocholine, 5 % D2O, 1 mM peptide, 5 % sodium 2,2-dimethyl-2-silapentane-5-sulfonate, 90 % H2O 90% H2O/10% D2O 0.01 4 1 atm 289 Bruker AVANCE III 500 3 2D 1H-13C HSQC 100 mM dodecylphosphocholine, 5 % D2O, 1 mM peptide, 5 % sodium 2,2-dimethyl-2-silapentane-5-sulfonate, 90 % H2O 90% H2O/10% D2O 0.01 4 1 atm 289 Bruker AVANCE III 500
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 500
NMR Ensemble Information Conformer Selection Criteria Conformers Calculated Total Number Conformers Submitted Total Number 10
Computation: NMR Software # Classification Version Software Name Author 1 data analysis NMRView Johnson, One Moon Scientific 2 structure calculation X-PLOR NIH 2.28 Schwieters, Kuszewski, Tjandra and Clore 3 refinement X-PLOR NIH 2.28 Schwieters, Kuszewski, Tjandra and Clore 5 processing NMRDraw Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 4 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 6 geometry optimization TALOS Cornilescu, Delaglio and Bax 7 data analysis QUEEN Nabuurs, Spronk, Krieger, Maassen, Vriend and Vuister 8 data analysis MOLMOL Koradi, Billeter and Wuthrich