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NMR SOLUTION STRUCTURE OF THE RNA HAIRPIN BINDING SITE FOR THE HISTONE STEM-LOOP BINDING PROTEIN
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
noesy
2.3 MM U-13C; 20 MM KPI, 20 MM KCL, 0.02 MM EDTA
100% D2O
100 mM
6.8
ambient
301
2
3D_13C-separated_NOESY
2.3 MM U-13C; 20 MM KPI, 20 MM KCL, 0.02 MM EDTA
100% D2O
100 mM
6.8
ambient
301
3
3D_15N-separated_NOESY
2.5 MM 15N-labeled; 20 MM KPI, 20 MM KCL, 0.02 MM EDTA
100% D2O
100 mM
6.8
ambient
278
4
DQF-COSY
2.5 MM 15N-labeled; 20 MM KPI, 20 MM KCL, 0.02 MM EDTA
100% D2O
100 mM
6.8
ambient
301
5
HetCor
2.5 MM 15N-labeled; 20 MM KPI, 20 MM KCL, 0.02 MM EDTA
100% D2O
100 mM
6.8
ambient
301
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
AMX
500
NMR Refinement
Method
Details
Software
simulated annealing
CALCULATIONS WERE PERFORMED
USING 232 CONFORMATIONALLY RESTRICTIVE NOE DERIVED DISTANCE CONSTRAINTS AND 55 BACKBONE AND 15 RIBOSE TORSION ANGLE CONSTRAINTS. BASE PAIR CONSTRAINTS WERE INTRODUCED FOR SIX BASE PAIRS USING HEAVY ATOM-HEAVY ATOM CONSTRAINTS. COORDINATES ARE FOR THE HAIRPIN DOMAIN ONLY. 5' FLANKING (GGCCAAA) AND 3' FLANKING (ACCCA) COORDINATES ARE NOT INCLUDED WITH THIS DEPOSITION. FEW CONSTRAINTS WERE OBTAINED FOR THESE VERY DYNAMIC REGIONS AND ALTHOUGH THEY WERE INCLUDED AS PART OF THE STRUCTURE CALCULATION, THEIR CONFORMATIONS APPEAR TO BE RANDOMLY DISTRIBUTED.
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
Conformers Submitted Total Number
1
Representative Model
1 (minimized average structure)
Additional NMR Experimental Information
Details
THIS STRUCTURE WAS DETERMINED USING A VARIETY OF 2D AND 3D HOMO- AND HETERO-NUCLEAR NMR METHODS