SOLUTION NMR

NMR Experiment
Experiment Type Sample Contents Ionic Strength Solvent pH Pressure Temprature (K)
1 2D 1H-1H TOCSY 2.0 mM dd k, 400 mM [U-2H] DPCd38, 400mM DPCd38/H2O ? 400mM DPCd38/H2O 6.0 ambient 318
2 2D 1H-1H NOESY 2.0 mM dd k, 400 mM [U-2H] DPCd38, 400mM DPCd38/H2O ? 400mM DPCd38/H2O 6.0 ambient 318
NMR Spectrometer Information
Spectrometer Manufacturer Model Field Strength
1 Bruker AVANCE III 800
NMR Refinement
Method Details Software
simulated annealing NOE INTENSITIES WERE CONVERTED INTO SEMI-QUANTITATIVE DISTANCE RESTRAINS. THE UPPER LIMITS OF THE DISTANCES RESTRAINS THUS OBTAINED WERE 2.8, 3.4 AND 5.0 A (STRONG, MEDIUM, AND WEAK NOES RESPECTIVELY). STRUCTURE CALCULATIONS WERE PERFORMED USING THE XPLOR-NIH SOFTWARE, VERSION 2.17.0 (SCHWIETERS ET AL., 2003). STARTING WITH THE EXTENDED STRUCTURE, 500 STRUCTURES WERE GENERATED USING A SIMULATED ANNEALING PROTOCOL. THIS WAS FOLLOWED BY 20000 STEPS OF SIMULATED ANNEALING AT 1000 K AND A SUBSEQUENT DECREASE IN TEMPERATURE IN 15000 STEPS IN THE FIRST SLOW-COOL ANNEALING STAGE. 1
NMR Ensemble Information
Conformer Selection Criteria structures with the lowest energy
Conformers Calculated Total Number 500
Conformers Submitted Total Number 20
Representative Model 1 (closest to the average)
Computation: NMR Software
# Classification Version Software Name Author
1 collection 2.0 TopSpin Bruker Biospin
2 processing ? NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3 chemical shift assignment ? NMRView Johnson, One Moon Scientific
4 data analysis ? NMRView Johnson, One Moon Scientific
5 peak picking ? NMRView Johnson, One Moon Scientific
6 geometry optimization ? X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore
7 structure solution ? X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore
8 refinement ? X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore
9 data analysis ? ProcheckNMR Laskowski and MacArthur
10 data analysis ? MOLMOL Koradi, Billeter and Wuthrich