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Solution NMR structure of recifin, a cysteine-rich tyrosyl-DNA Phosphodiesterase I modulatory peptide from the marine sponge Axinella sp.
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 4 mg/mL recifin 90% H2O/10% D2O 0 mM 4.85 ambient atm 298 Bruker AVANCE III 600 2 2D 1H-1H TOCSY 4 mg/mL recifin 90% H2O/10% D2O 0 mM 4.85 ambient atm 298 Bruker AVANCE III 600 3 2D 1H-1H NOESY 4 mg/mL recifin 100% D2O 0 mM 4.85 ambient atm 298 Bruker AVANCE III 600 4 2D 1H-1H TOCSY 4 mg/mL recifin 100% D2O 0 mM 4.85 ambient atm 298 Bruker AVANCE III 600 5 2D 1H-13C HSQC 4 mg/mL recifin 100% D2O 0 mM 4.85 ambient atm 298 Bruker AVANCE III 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 600
NMR Refinement Method Details Software simulated annealing Structures calculated with erosion angle dynamics then refined and minimized in explicit water using Cartesian dynamics CNS
NMR Ensemble Information Conformer Selection Criteria structures with acceptable covalent geometry Conformers Calculated Total Number 50 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin 3.5 Bruker Biospin 2 processing TopSpin 3.5 Bruker Biospin 3 chemical shift assignment CcpNmr Analysis 2.4.1 CCPN 4 data analysis XEASY Bartels et al. 5 structure calculation CYANA 3.97 Guntert, Mumenthaler and Wuthrich 6 refinement CNS Brunger, Adams, Clore, Gros, Nilges and Read