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Solution structure of the docking and dimerization domain of protein kinase A II-alpha (RIIalpha D/D). Alternatively called the N-terminal dimerization domain of the regulatory subunit of protein kinase A.
SOLUTION NMR
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
DMX
500
2
Bruker
DRX
600
NMR Refinement
Method
Details
Software
Hybrid distance geometry-dynamical simulated annealing and refinement protocol for monomer structure determination,
with 457 NOE-derived distance restraints (185 intra-residue, i-j=0; 136 sequential, |i-j|=1; 95 medium range, 1<|i-j|<5;
41 long range, |i-j|>4), 19 distance restraints representing hydrogen
bonds (entered as 2 distances each), 25 phi- and 5 chi1-torsion angle restraints.
Molecular dynamical simulated annealing protocol for dimer structure determination, using
505 NOE-derived distance restraints (185 intra-residue, i-j=0; 136 sequential, |i-j|=1;
95 medium range, 1<|i-j|<5; 25 long range, |i-j|>4; 38 inter-molecular; 26 ambiguous),
19 distance restraints representing hydrogen bonds (entered as 2 distances each),
25 phi- and 5 chi1-torsion angle restraints.
Filtered NOESY spectrum on a 50% unlabeled-50% 13C-15N-labeled sample was
used to obtain inter-molecular NOE contacts of the homodimer. Other NOEs were
classified as intra-molecular and ambiguous.
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
structures with the least restraint violations,structures with the lowest energy
Conformers Calculated Total Number
49
Conformers Submitted Total Number
24
Representative Model
1 (lowest energy)
Additional NMR Experimental Information
Details
This structure was determined using standard homonuclear, heteronuclear, and triple resonance spectroscopy,
and 3D 13C-edited(w2)-12C-filtered(w1)/13C-filtered(w3) NOESY.