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Conformers: ABBIImiBZICOPNSYNN
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Regulatory motif from the thymidylate synthase mRNA

Results of the assignment of 44 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
013mei_A_C1_C2AAAAA00740.15 AA00
023mei_A_C2_G3AAAAA00860.16 AA00
033mei_A_G3_C4AAAAA00840.10 AA00
043mei_A_C4_C5AAAAA00860.13 AA00
053mei_A_C5_G6AAAAA00800.16 AA00
063mei_A_G6_C7AAAAA00550.16 AA00
073mei_A_C7_G8AAAAA00930.19 AA00
083mei_A_G8_C9AAAAA00490.37 AA00
093mei_A_C9_C10AAAAA00560.32 AA00
103mei_A_C10_A11AAAAA08770.19 AA08
113mei_A_A11_5BU12AAAAA00850.10 AA00
123mei_A_5BU12_G13AAAAA00710.16 AA00
133mei_A_G13_C14OPNOP09250.37 OP09
143mei_A_C14_C15OPNOP12730.31 OP12
153mei_A_C15_U16NANNANT01.03 OP01
163mei_A_U16_G17OPNOP11370.39 OP11
173mei_A_G17_U18AAAAA00740.25 AA00
183mei_A_U18_G19AAuAA12820.24 AA12
193mei_A_G19_G20AAwAA01870.17 AA01
203mei_A_G20_C21AAAAA00660.23 AA00
213mei_A_C21_G22AAAAA00930.13 AA00
223mei_A_G22_G23AAAAA00870.14 AA00
233mei_B_C1_C2AAAAA00750.18 AA00
243mei_B_C2_G3AAAAA00880.11 AA00
253mei_B_G3_C4AAAAA00940.12 AA00
263mei_B_C4_C5AAAAA00640.23 AA00
273mei_B_C5_G6AAwAA01890.15 AA01
283mei_B_G6_C7AAAAA00650.25 AA00
293mei_B_C7_G8AAAAA00910.16 AA00
303mei_B_G8_C9AAAAA00900.11 AA00
313mei_B_C9_C10AAAAA00870.26 AA00
323mei_B_C10_A11AAAAA00830.18 AA00
333mei_B_A11_5BU12AAAAA00660.21 AA00
343mei_B_5BU12_G13AAAAA00790.12 AA00
353mei_B_G13_C14AAAAA00900.12 AA00
363mei_B_C14_C15AAAAA00310.24 AA00
373mei_B_C15_U16NANNANT00.89 OP30
383mei_B_U16_G17NANNANT02.25 IC07
393mei_B_G17_U18AAAAA00670.31 AA00
403mei_B_U18_G19AAAAA00320.43 AA00
413mei_B_G19_G20AAAAA00450.23 AA00
423mei_B_G20_C21AAAAA00550.15 AA00
433mei_B_C21_G22AAAAA00780.13 AA00
443mei_B_G22_G23AAAAA00940.18 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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