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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 one hydrogen bond pair

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.

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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 numberStep nameCANANtCconfalrmsd
012l8u_A_C1_C2AAwAA01580.54 AA01
022l8u_A_C2_G3AAAAA00760.17 AA00
032l8u_A_G3_C4AAAAA00770.27 AA00
042l8u_A_C4_U5AAAAA00680.41 AA00
052l8u_A_U5_G6AAwAA01530.45 AA01
062l8u_A_G6_C7AAwAA01390.55 AA01
072l8u_A_C7_G8AAAAA00340.41 AA00
082l8u_A_G8_G9AAAAA00780.21 AA00
092l8u_B_C10_C11AAAAA00630.26 AA00
102l8u_B_C11_G12AAAAA00710.18 AA00
112l8u_B_G12_C13AAAAA00750.23 AA00
122l8u_B_C13_U14NANNANT01.14 OP08
132l8u_B_U14_G15NANNANT00.65 AA01
142l8u_B_G15_C16AAuAA12530.40 AA12
152l8u_B_C16_G17AAwAA01640.24 AA01
162l8u_B_G17_G18AAAAA00780.23 AA00

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Definition of torsion angles
step:
Table of conformers

δ1ε1ζ1α2β2γ2δ2χ1χ2μNNCC
step_torsions
ntC_average
Δ torsions
torsion scores

commentsstep 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).

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