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Solution Structure of the DNA Complex of Human TRF1
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
3D Sequential assignment protocol; 3D HNHA; 3D_15N_separated_NOESY, 3D_13C_separated_NOESY, 2D NOESY, 2D TOCSY and 2D COSY with or without isotope filtering
1.5-2.5mM TRF1-DNA complex; 5mM Phosphate buffer with 10mM NaCl
90% H2O, 10% D2O
or 100% D2O
6.8
ambient
305
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
DMX
600
2
Bruker
DRX
500
3
Bruker
AMX
500
NMR Refinement
Method
Details
Software
distance geometry/simulated annealing
The structures were generated by 4-dimensional simulated annealing (4D-SA) with program EMBOSS, based on a total of 1341 experimental restraints, 901 and 356 are the NOE derived distance restraints for protein and DNA, respectively, 29 are protein dihedral restraints and 55 are protein-DNA intermolecular restrainTs. In addition, 66 hydrogen bond and 221 ring-to-ring restraints are applied through 4D-SA to maintain the DNA base pair planarity.
EMBOSS
NMR Ensemble Information
Conformer Selection Criteria
structures with the least restraint violations
Conformers Calculated Total Number
100
Conformers Submitted Total Number
20
Representative Model
2 (lowest energy)
Additional NMR Experimental Information
Details
The structures were determined by multi-dimensional heteronuclear -edited and -filtered NMR spectroscopy.