Conformers:
ABBIImiBZICOPNSYNN
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NMR Spectroscopy and Molecular Dynamics Simulation of r(CCGCUGCGG)2 Reveal a Dynamic UU Internal Loop Found in Myotonic Dystrophy Type 1 - UU pair with zero hydrogen bond pairs
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Results of the assignment of 16 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
| step number | Step name | CANA | NtC | confal | rmsd |
|---|---|---|---|---|---|
| 01 | 2l8c_A_C1_C2 | AAA | AA00 | 23 | 0.42 |
| 02 | 2l8c_A_C2_G3 | AAA | AA00 | 74 | 0.24 |
| 03 | 2l8c_A_G3_C4 | AAw | AA01 | 45 | 0.35 |
| 04 | 2l8c_A_C4_U5 | AAA | AA00 | 46 | 0.46 |
| 05 | 2l8c_A_U5_G6 | AAw | AA01 | 73 | 0.36 |
| 06 | 2l8c_A_G6_C7 | AAw | AA01 | 58 | 0.23 |
| 07 | 2l8c_A_C7_G8 | AAu | AA12 | 40 | 0.34 |
| 08 | 2l8c_A_G8_G9 | AAA | AA00 | 64 | 0.22 |
| 09 | 2l8c_B_C10_C11 | AAA | AA00 | 60 | 0.45 |
| 10 | 2l8c_B_C11_G12 | AAw | AA01 | 36 | 0.27 |
| 11 | 2l8c_B_G12_C13 | AAA | AA00 | 11 | 0.50 |
| 12 | 2l8c_B_C13_U14 | AAw | AA01 | 43 | 0.54 |
| 13 | 2l8c_B_U14_G15 | AAA | AA00 | 45 | 0.46 |
| 14 | 2l8c_B_G15_C16 | AAA | AA00 | 74 | 0.41 |
| 15 | 2l8c_B_C16_G17 | AAw | AA01 | 68 | 0.50 |
| 16 | 2l8c_B_G17_G18 | AAA | AA00 | 20 | 0.31 |
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
|
step: Table of conformers |
| δ1 | ε1 | ζ1 | α2 | β2 | γ2 | δ2 | χ1 | χ2 | μ | NN | CC | |
| step_torsions | ||||||||||||
| ntC_average | ||||||||||||
| Δ torsions | ||||||||||||
| torsion scores |
| comments | step confal = NaN cartesian RMSD = NaN Å pseudorotation: NA details: NA |
Similarity of step to class averages
Download
Results as csv or json file.Best NtC fitted to input structure.
Restraints
Restraints file for REFMAC (steps with RMSD <= 0.5Å)Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]
Definitions
Average parameters (csv), esd values (csv), and Cartesian coordinates of conformers.Download the papers
Description of DNATCO server:Černý et al., Nucleic Acids Research, 44, W284 (2016).
Definition of conformers:
Schneider et al., Acta Cryst D, 74, 52-64 (2018).
Example of application:
Schneider et al., Genes, 8(10), 278, (2017).
Browse conformers
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