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structure of IIB domain of the mannose transporter of E. coli
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 3D HCCH-TOCSY 0.5-1 mM [U-100% 13C; U-100% 15N] protein, sodium phosphate, sodium azide 100% D2O 20 6.5 ambient 303 2 3D HCCH-COSY 0.5-1 mM [U-100% 13C; U-100% 15N] protein, sodium phosphate, sodium azide 100% D2O 20 6.5 ambient 303 3 3D 1H-13C NOESY 0.5-1 mM [U-100% 13C; U-100% 15N] protein, sodium phosphate, sodium azide 100% D2O 20 6.5 ambient 303 4 2D 1H-15N HSQC 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 5 3D 1H-15N NOESY 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 6 3D CBCA(CO)NH 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 7 3D C(CO)NH 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 8 3D HNCACB 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 9 3D HBHA(CO)NH 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303 10 3D H(CCO)NH 0.5-1 mM [U-100% 15N] protein, sodium phosphate, sodium azide 90% H2O/10% D2O 20 6.5 ambient 303
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DRX 600 2 Bruker DRX 800 3 Bruker DRX 500
NMR Refinement Method Details Software simulated annealing in torsion angle space RMS DEVIATION FROM EXPERIMENTAL RESTRAINTS (NUNMER OF RESTRAINTS IN PARENTHESES):
INTERPROTON DISTANCES (A) (1577) 0.008,
TORSION ANGLES (DEG) (478) 0.26,
13CALPHA SHIFTS (PPM) (161) 1.25,
13CBETA SHIFTS (PPM) (158) 1.23.
RDC R-factors (%):
PHAGE 1DNH (151) 4.2,
PHAGE 1DNC' (113) 18.2,
PHAGE 2DHNC' (113) 16.5,
PEG/HEXANOL 1DNH (141) 6.0,
PEG/HEXANOL 1DNC' (96) 25.8,
PEG/HEXANOL 2DHNC' (103) 23.5. PIPP
NMR Ensemble Information Conformer Selection Criteria all calculated structures Conformers Calculated Total Number 130 Conformers Submitted Total Number 1 Representative Model 1 (minimized average structure)
Additional NMR Experimental Information Details Double and triple resonance 3D NMR experiments for assignments (HNCACB, CBCA(CO)NH, HBHA(CBCACO)NH, C(CCO)NH, H(CCO)NH, HCCH-COSY, HCCH-TOCSY). NOE-derived interproton distance restrants from 3D 15N-, 13C-, 13C/15M-, 13C/13C, and 15N/15N-separated NOE spectra. Side chain rotamers from 3H heteronuclear couplings and short mixing time 3D 13C-separated NOE and 3D 15N-seaparated ROE spectra. RDCs obtained by taking difference in J couplings in aligned (phage pf1 and PEG/hexanol) and isotopic media.
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment PIPP Garrett and Clore 2 data analysis PIPP Garrett and Clore 3 refinement X-PLOR NIH 2.18.1 Schwieters, Kuszewski and Clore 4 chemical shift assignment CAPP Garrett and Clore 5 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax